BLASTP 2.2.1 [Apr-13-2001]
Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= gi|15645870|ref|NP_208048.1| ribosome releasing factor
(frr) [Helicobacter pylori 26695]
(185 letters)
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
13,198 sequences; 2,899,336 total letters
Searching...........................done
Score E
Sequences producing significant alignments: (bits) Value
pdb|1EH1|A Chain A, Ribosome Recycling Factor From Thermus ... 162 2e-41
pdb|1EK8|A Chain A, Crystal Structure Of The Ribosome Recyc... 159 2e-40
pdb|1DD5|A Chain A, Crystal Structure Of Thermotoga Maritim... 153 1e-38
pdb|1GE9|A Chain A, Solution Structure Of The Ribosome Recy... 122 3e-29
pdb|2TMA|A Chain A, Tropomyosin >gi|230768|pdb|2TMA|B Chain... 30 0.17
pdb|1C1G|A Chain A, Crystal Structure Of Tropomyosin At 7 A... 30 0.17
pdb|1I84|S Chain S, Cryo-Em Structure Of The Heavy Meromyos... 29 0.29
pdb|1E3M|A Chain A, The Crystal Structure Of E. Coli Muts B... 28 0.49
pdb|1EQ1|A Chain A, Nmr Structure Of An Exchangeable Apolip... 28 0.49
pdb|1F1M|A Chain A, Crystal Structure Of Outer Surface Prot... 28 0.64
pdb|1J7N|B Chain B, Anthrax Toxin Lethal Factor >gi|1697482... 27 1.4
pdb|1GNK|B Chain B, Glnk, A Signal Protein From E. Coli >gi... 26 3.2
pdb|2GNK|A Chain A, Glnk, A Signal Protein From E. Coli 26 3.2
pdb|1MJH|B Chain B, Structure-Based Assignment Of The Bioch... 25 4.1
pdb|1M6J|A Chain A, Crystal Structure Of Triosephosphate Is... 25 4.1
pdb|1FEW|A Chain A, Crystal Structure Of SmacDIABLO 25 4.1
pdb|1MFR|A Chain A, Crystal Structure Of M Ferritin >gi|554... 25 5.4
pdb|1HUO|A Chain A, Crystal Structure Of Dna Polymerase Bet... 25 5.4
pdb|1MTY|D Chain D, Methane Monooxygenase Hydroxylase From ... 25 7.0
pdb|1DMG|A Chain A, Crystal Structure Of Ribosomal Protein L4 25 7.0
pdb|1MWS|A Chain A, Structure Of Nitrocefin Acyl-Penicillin... 24 9.2
pdb|1QO5|A Chain A, Fructose 1,6-Bisphosphate Aldolase From... 24 9.2
pdb|1I0A|A Chain A, Crystal Structure Of Wild Type Turkey D... 24 9.2
pdb|1MWX|A Chain A, Structure Of Penicillin Binding Protein... 24 9.2
pdb|1BPE| Dna Polymerase Beta (Beta Polymerase) (E.C.2.7.... 24 9.2
>pdb|1EH1|A Chain A, Ribosome Recycling Factor From Thermus Thermophilus
Length = 185
Score = 162 bits (411), Expect = 2e-41
Identities = 75/182 (41%), Positives = 127/182 (69%)
Query: 2 LQAIYNETKDLMQKSIQALNRDFSTLRSAKVSVNILDHIKVDYYGTPTALNQVGSVMSLD 61
L+ +Y ET+ MQKS++ L + + LR+ + + +L H+KV+YYG LNQ+ +V + D
Sbjct: 3 LKELYAETRSHMQKSLEVLEHNLAGLRTGRANPALLLHLKVEYYGAHVPLNQIATVTAPD 62
Query: 62 ATTLQISPWEKNLLKEIERSIQEANIGVNPNNDGETIKLFFPPMTSEQRKLIAKDAKAMG 121
TL + W++N LK IE++I+++++G+NP+N G+ + + PP+T E+RK + + +
Sbjct: 63 PRTLVVQSWDQNALKAIEKAIRDSDLGLNPSNKGDALYINIPPLTEERRKDLVRAVRQYA 122
Query: 122 EKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKEDA 181
E+ +VA+RNIR++A +++KKL K+ +SEDE+K+A+ +IQKITDE I K D+ + KE
Sbjct: 123 EEGRVAIRNIRREALDKLKKLAKELHLSEDETKRAEAEIQKITDEFIAKADQLAEKKEQE 182
Query: 182 IL 183
IL
Sbjct: 183 IL 184
>pdb|1EK8|A Chain A, Crystal Structure Of The Ribosome Recycling Factor (Rrf)
From Escherichia Coli
Length = 185
Score = 159 bits (402), Expect = 2e-40
Identities = 75/184 (40%), Positives = 129/184 (69%)
Query: 1 MLQAIYNETKDLMQKSIQALNRDFSTLRSAKVSVNILDHIKVDYYGTPTALNQVGSVMSL 60
M+ I + + M K ++A S +R+ + S ++LD I V+YYGTPT L Q+ SV
Sbjct: 1 MISDIRKDAEVRMDKCVEAFKTQISKIRTGRASPSLLDGIVVEYYGTPTPLRQLASVTVE 60
Query: 61 DATTLQISPWEKNLLKEIERSIQEANIGVNPNNDGETIKLFFPPMTSEQRKLIAKDAKAM 120
D+ TL+I+ +++++ +E++I +++G+NPN+ G I++ PP+T E+RK + K +
Sbjct: 61 DSRTLKINVFDRSMSPAVEKAIMASDLGLNPNSAGSDIRVPLPPLTEERRKDLTKIVRGE 120
Query: 121 GEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKED 180
E+A+VAVRN+R+DAN++VK L KDKEISED+ +++Q+ +QK+TD AIKKI+ ++ +KE
Sbjct: 121 AEQARVAVRNVRRDANDKVKALLKDKEISEDDDRRSQDDVQKLTDAAIKKIEAALADKEA 180
Query: 181 AILK 184
+++
Sbjct: 181 ELMQ 184
>pdb|1DD5|A Chain A, Crystal Structure Of Thermotoga Maritima Ribosome
Recycling Factor, Rrf
Length = 185
Score = 153 bits (387), Expect = 1e-38
Identities = 72/184 (39%), Positives = 125/184 (67%)
Query: 1 MLQAIYNETKDLMQKSIQALNRDFSTLRSAKVSVNILDHIKVDYYGTPTALNQVGSVMSL 60
M+ E K+ M+++++ + + +R+ K S IL+ IKVDYYG PT +NQ+ ++
Sbjct: 1 MVNPFIKEAKEKMKRTLEKIEDELRKMRTGKPSPAILEEIKVDYYGVPTPVNQLATISIS 60
Query: 61 DATTLQISPWEKNLLKEIERSIQEANIGVNPNNDGETIKLFFPPMTSEQRKLIAKDAKAM 120
+ TL I PW+K++L IE++I +++G+NP NDG I+L FP T+EQR+ K AK +
Sbjct: 61 EERTLVIKPWDKSVLSLIEKAINASDLGLNPINDGNVIRLVFPSPTTEQREKWVKKAKEI 120
Query: 121 GEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKED 180
E+ K+A+RNIR++ ++K+ +K+ I ED++K+ + +IQK+TDE I+K+DE + K++
Sbjct: 121 VEEGKIAIRNIRREILKKIKEDQKEGLIPEDDAKRLENEIQKLTDEFIEKLDEVFEIKKE 180
Query: 181 AILK 184
I++
Sbjct: 181 EIME 184
>pdb|1GE9|A Chain A, Solution Structure Of The Ribosome Recycling Factor
Length = 184
Score = 122 bits (305), Expect = 3e-29
Identities = 60/184 (32%), Positives = 118/184 (63%), Gaps = 4/184 (2%)
Query: 2 LQAIYNETKDLMQKSIQALNRDFSTLRSAKVSVNILDHIKVDYYGTPTALNQVGSVMSLD 61
L+ I+ E + M+K+++ + + LR+++ S +++ IKV+YYG+ + Q+G++ +
Sbjct: 5 LEDIFKEAEKDMKKAVEYYKNEIAGLRTSRASTALVEEIKVEYYGSKVPIKQLGTISVPE 64
Query: 62 ATTLQISPWEKNLLKEIERSIQEANIGVNPNNDGETIKLFFPPMTSEQRKLIAKDAKAMG 121
+ I W++N + IE++I+E + +NP G I++ PP+T E+R+ + + +
Sbjct: 65 HNQIVIQVWDQNAVPAIEKAIRE-ELNLNPTVQGNVIRVTLPPLTEERRRELVRLLHKIT 123
Query: 122 EKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKEDA 181
E+A+V VRN+R++A +++LE ISEDE K+A E++QK+TD+ I +I++ ++ KE
Sbjct: 124 EEARVRVRNVRREAKEMIEELE---GISEDEKKRALERLQKLTDKYIDEINKLMEAKEKE 180
Query: 182 ILKV 185
I+ V
Sbjct: 181 IMSV 184
>pdb|2TMA|A Chain A, Tropomyosin
pdb|2TMA|B Chain B, Tropomyosin
Length = 284
Score = 30.0 bits (66), Expect = 0.17
Identities = 12/57 (21%), Positives = 36/57 (63%), Gaps = 6/57 (10%)
Query: 132 RQDANNQVKKLEKDKEISEDESKKAQEQIQKI------TDEAIKKIDESVKNKEDAI 182
+++A ++ ++ E DK+ +ED SK+ ++++ + T++ + K E++K+ ++ +
Sbjct: 15 KENALDRAEQAEADKKAAEDRSKQLEDELVSLQKKLKGTEDELDKYSEALKDAQEKL 71
Score = 28.9 bits (63), Expect = 0.37
Identities = 25/111 (22%), Positives = 54/111 (48%), Gaps = 9/111 (8%)
Query: 75 LKEIERSIQEANIG---VNPNNDGETIKLFFPPMTSEQRKLIAKDAKAMGEKAKVAVRNI 131
L+E E++ E+ G + + K+ + ++ K IA+DA E+ + I
Sbjct: 113 LEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVII 172
Query: 132 RQDANNQVKKLEKDKEISEDESKKAQEQIQKITD--EAIKKIDESVKNKED 180
D +++ E+ E+SE + + +E+I+ +T+ ++++ E KED
Sbjct: 173 ESD----LERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQKED 219
Score = 26.2 bits (56), Expect = 2.4
Identities = 23/64 (35%), Positives = 36/64 (55%), Gaps = 9/64 (14%)
Query: 115 KDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQ----IQKITDEAIKK 170
KDA+ EK ++A + DA V L + ++ E+E +AQE+ +QK+ +EA K
Sbjct: 65 KDAQ---EKLELAEKKAT-DAEADVASLNRRIQLVEEELDRAQERLATALQKL-EEAEKA 119
Query: 171 IDES 174
DES
Sbjct: 120 ADES 123
>pdb|1C1G|A Chain A, Crystal Structure Of Tropomyosin At 7 Angstroms Resolution
In The Spermine-Induced Crystal Form
pdb|1C1G|B Chain B, Crystal Structure Of Tropomyosin At 7 Angstroms Resolution
In The Spermine-Induced Crystal Form
pdb|1C1G|C Chain C, Crystal Structure Of Tropomyosin At 7 Angstroms Resolution
In The Spermine-Induced Crystal Form
pdb|1C1G|D Chain D, Crystal Structure Of Tropomyosin At 7 Angstroms Resolution
In The Spermine-Induced Crystal Form
Length = 284
Score = 30.0 bits (66), Expect = 0.17
Identities = 13/57 (22%), Positives = 35/57 (60%), Gaps = 6/57 (10%)
Query: 132 RQDANNQVKKLEKDKEISEDESKKAQEQI------QKITDEAIKKIDESVKNKEDAI 182
+++A ++ + E DK+ +ED SK+ ++++ K T++ + K E++K+ ++ +
Sbjct: 15 KENALDRADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEALKDAQEKL 71
Score = 28.9 bits (63), Expect = 0.37
Identities = 25/111 (22%), Positives = 54/111 (48%), Gaps = 9/111 (8%)
Query: 75 LKEIERSIQEANIG---VNPNNDGETIKLFFPPMTSEQRKLIAKDAKAMGEKAKVAVRNI 131
L+E E++ E+ G + + K+ + ++ K IA+DA E+ + I
Sbjct: 113 LEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVII 172
Query: 132 RQDANNQVKKLEKDKEISEDESKKAQEQIQKITD--EAIKKIDESVKNKED 180
D +++ E+ E+SE + + +E+I+ +T+ ++++ E KED
Sbjct: 173 ESD----LERAEERAELSEGKCAELEEEIKTVTNNLKSLEAQAEKYSQKED 219
Score = 26.2 bits (56), Expect = 2.4
Identities = 23/64 (35%), Positives = 36/64 (55%), Gaps = 9/64 (14%)
Query: 115 KDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQ----IQKITDEAIKK 170
KDA+ EK ++A + DA V L + ++ E+E +AQE+ +QK+ +EA K
Sbjct: 65 KDAQ---EKLELAEKKAT-DAEADVASLNRRIQLFEEELDRAQERLATALQKL-EEAEKA 119
Query: 171 IDES 174
DES
Sbjct: 120 ADES 123
>pdb|1I84|S Chain S, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment.
pdb|1I84|V Chain V, Cryo-Em Structure Of The Heavy Meromyosin Subfragment Of
Chicken Gizzard Smooth Muscle Myosin With Regulatory
Light Chain In The Dephosphorylated State. Only C Alphas
Provided For Regulatory Light Chain. Only Backbone Atoms
Provided For S2 Fragment
Length = 1184
Score = 29.3 bits (64), Expect = 0.29
Identities = 16/73 (21%), Positives = 41/73 (55%), Gaps = 1/73 (1%)
Query: 108 EQRKLIAKDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEA 167
+Q+ L ++ E A+ ++ + A+ ++KK+E D I ED++ K ++ +K+ +E
Sbjct: 954 QQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKE-RKLLEER 1012
Query: 168 IKKIDESVKNKED 180
+ + ++ +E+
Sbjct: 1013 VSDLTTNLAEEEE 1025
>pdb|1E3M|A Chain A, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:t Mismatch
pdb|1E3M|B Chain B, The Crystal Structure Of E. Coli Muts Binding To Dna With
A G:t Mismatch
Length = 800
Score = 28.5 bits (62), Expect = 0.49
Identities = 15/51 (29%), Positives = 25/51 (48%)
Query: 5 IYNETKDLMQKSIQALNRDFSTLRSAKVSVNILDHIKVDYYGTPTALNQVG 55
+Y E DL+ ++AL + S L V VN+ + Y PT +++ G
Sbjct: 527 LYEELFDLLLPHLEALQQSASALAELDVLVNLAERAYTLNYTCPTFIDKPG 577
>pdb|1EQ1|A Chain A, Nmr Structure Of An Exchangeable Apolipoprotein-Manduca
Sexta Apolipophorin-Iii
Length = 166
Score = 28.5 bits (62), Expect = 0.49
Identities = 15/70 (21%), Positives = 35/70 (49%)
Query: 115 KDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDES 174
++ + E+ + A ++ ++AN KL+ + + ES+K +++ +E KK+
Sbjct: 81 QNVEKTAEELRKAHPDVEKEANAFKDKLQAAVQTTVQESQKLAKEVASNMEETNKKLAPK 140
Query: 175 VKNKEDAILK 184
+K D +K
Sbjct: 141 IKQAYDDFVK 150
Score = 28.1 bits (61), Expect = 0.64
Identities = 31/121 (25%), Positives = 47/121 (38%), Gaps = 11/121 (9%)
Query: 76 KEIERSIQEA-NIGVNPNNDGETIKLFFPPMTSEQRKLIAKDAKAMGE------KAKVAV 128
KE +++ E N VN N + K S ++L A + G KAK A+
Sbjct: 17 KEFQKTFSEQFNSLVNSKNTQDFNKALKDGSDSVLQQLSAFSSSLQGAISDANGKAKEAL 76
Query: 129 RNIRQDANNQVKKLEKDKEISEDESK----KAQEQIQKITDEAIKKIDESVKNKEDAILK 184
RQ+ ++L K E E+ K Q +Q E+ K E N E+ K
Sbjct: 77 EQARQNVEKTAEELRKAHPDVEKEANAFKDKLQAAVQTTVQESQKLAKEVASNMEETNKK 136
Query: 185 V 185
+
Sbjct: 137 L 137
>pdb|1F1M|A Chain A, Crystal Structure Of Outer Surface Protein C (Ospc)
pdb|1F1M|B Chain B, Crystal Structure Of Outer Surface Protein C (Ospc)
pdb|1F1M|C Chain C, Crystal Structure Of Outer Surface Protein C (Ospc)
pdb|1F1M|D Chain D, Crystal Structure Of Outer Surface Protein C (Ospc)
Length = 164
Score = 28.1 bits (61), Expect = 0.64
Identities = 17/61 (27%), Positives = 27/61 (43%), Gaps = 1/61 (1%)
Query: 117 AKAMGEKAKVAVRNIRQD-ANNQVKKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESV 175
AK GE + + D A + K DK DE +K E ++ ++ A + + SV
Sbjct: 99 AKLKGEHTDLGKEGVTDDNAKKAILKTNNDKTKGADELEKLFESVKNLSKAAKEMLTNSV 158
Query: 176 K 176
K
Sbjct: 159 K 159
>pdb|1J7N|B Chain B, Anthrax Toxin Lethal Factor
pdb|1J7N|A Chain A, Anthrax Toxin Lethal Factor
pdb|1JKY|A Chain A, Crystal Structure Of The Anthrax Lethal Factor (Lf): Wild-
Type Lf Complexed With The N-Terminal Sequence Of Mapkk2
Length = 776
Score = 26.9 bits (58), Expect = 1.4
Identities = 11/28 (39%), Positives = 20/28 (71%)
Query: 144 KDKEISEDESKKAQEQIQKITDEAIKKI 171
K+KE ++DE+K+ E+ K +E +K+I
Sbjct: 12 KEKEKNKDENKRKDEERNKTQEEHLKEI 39
>pdb|1GNK|B Chain B, Glnk, A Signal Protein From E. Coli
pdb|1GNK|A Chain A, Glnk, A Signal Protein From E. Coli
Length = 112
Score = 25.8 bits (55), Expect = 3.2
Identities = 18/56 (32%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 28 RSAKVSVNILDHIKVDYYGTPTALNQVGSVMSLDATTLQISPWEKNLLKEIERSIQ 83
R A+ SVN L +K+D L++V ++S A T +I K + E++R I+
Sbjct: 47 RGAEYSVNFLPKVKIDVAIADDQLDEVIDIVSKAAYTGKIGD-GKIFVAELQRVIR 101
>pdb|2GNK|A Chain A, Glnk, A Signal Protein From E. Coli
Length = 112
Score = 25.8 bits (55), Expect = 3.2
Identities = 18/56 (32%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 28 RSAKVSVNILDHIKVDYYGTPTALNQVGSVMSLDATTLQISPWEKNLLKEIERSIQ 83
R A+ SVN L +K+D L++V ++S A T +I K + E++R I+
Sbjct: 47 RGAEYSVNFLPKVKIDVAIADDQLDEVIDIVSKAAYTGKIGD-GKIFVAELQRVIR 101
>pdb|1MJH|B Chain B, Structure-Based Assignment Of The Biochemical Function Of
Hypothetical Protein Mj0577: A Test Case Of Structural
Genomics
pdb|1MJH|A Chain A, Structure-Based Assignment Of The Biochemical Function Of
Hypothetical Protein Mj0577: A Test Case Of Structural
Genomics
Length = 162
Score = 25.4 bits (54), Expect = 4.1
Identities = 26/99 (26%), Positives = 38/99 (38%), Gaps = 18/99 (18%)
Query: 99 KLFFPPMTSEQRKLIAKDAKAMGEKAKVAVRNIRQDANNQVKK------------LEKDK 146
K+ +P SE ++ K KA V + ++KK L K
Sbjct: 7 KILYPTDFSETAEIALKHVKAFKTLKAEEVILLHVIDEREIKKRDIFSLLLGVAGLNKSV 66
Query: 147 EISEDESKKAQEQIQKITDEAIKKIDESVKNKEDAILKV 185
E E+E K K+T+EA K++ K ED KV
Sbjct: 67 EEFENELKN------KLTEEAKNKMENIKKELEDVGFKV 99
>pdb|1M6J|A Chain A, Crystal Structure Of Triosephosphate Isomerase From
Entamoeba Histolytica
pdb|1M6J|B Chain B, Crystal Structure Of Triosephosphate Isomerase From
Entamoeba Histolytica
Length = 261
Score = 25.4 bits (54), Expect = 4.1
Identities = 17/72 (23%), Positives = 36/72 (49%), Gaps = 10/72 (13%)
Query: 107 SEQRKLIAKDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQKITDE 166
SE+R++ + + + EK KVA+ DA +V I E E+++ Q +++
Sbjct: 103 SERRQIFHESNEQVAEKVKVAI-----DAGLKVIAC-----IGETEAQRIANQTEEVVAA 152
Query: 167 AIKKIDESVKNK 178
+K I+ ++ +
Sbjct: 153 QLKAINNAISKE 164
>pdb|1FEW|A Chain A, Crystal Structure Of SmacDIABLO
Length = 184
Score = 25.4 bits (54), Expect = 4.1
Identities = 21/91 (23%), Positives = 49/91 (53%), Gaps = 4/91 (4%)
Query: 96 ETIKLFFPPMTSEQRKLIAKDA--KAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDES 153
E +KL MT+ +A +A + ++A + RN Q QV+++ + + E+
Sbjct: 94 EYLKLETTWMTAVGLSEMAAEAAYQTGADQASITARNHIQLVKLQVEEVHQLSR--KAET 151
Query: 154 KKAQEQIQKITDEAIKKIDESVKNKEDAILK 184
K A+ QI+++ + ++ +E +++++A L+
Sbjct: 152 KLAEAQIEELKQKTQEEGEERAESEQEAYLR 182
>pdb|1MFR|A Chain A, Crystal Structure Of M Ferritin
pdb|1MFR|B Chain B, Crystal Structure Of M Ferritin
pdb|1MFR|C Chain C, Crystal Structure Of M Ferritin
pdb|1MFR|D Chain D, Crystal Structure Of M Ferritin
pdb|1MFR|E Chain E, Crystal Structure Of M Ferritin
pdb|1MFR|F Chain F, Crystal Structure Of M Ferritin
pdb|1MFR|G Chain G, Crystal Structure Of M Ferritin
pdb|1MFR|H Chain H, Crystal Structure Of M Ferritin
pdb|1MFR|I Chain I, Crystal Structure Of M Ferritin
pdb|1MFR|J Chain J, Crystal Structure Of M Ferritin
pdb|1MFR|K Chain K, Crystal Structure Of M Ferritin
pdb|1MFR|L Chain L, Crystal Structure Of M Ferritin
pdb|1MFR|M Chain M, Crystal Structure Of M Ferritin
pdb|1MFR|N Chain N, Crystal Structure Of M Ferritin
pdb|1MFR|O Chain O, Crystal Structure Of M Ferritin
pdb|1MFR|P Chain P, Crystal Structure Of M Ferritin
pdb|1MFR|Q Chain Q, Crystal Structure Of M Ferritin
pdb|1MFR|R Chain R, Crystal Structure Of M Ferritin
pdb|1MFR|S Chain S, Crystal Structure Of M Ferritin
pdb|1MFR|T Chain T, Crystal Structure Of M Ferritin
pdb|1MFR|U Chain U, Crystal Structure Of M Ferritin
pdb|1MFR|V Chain V, Crystal Structure Of M Ferritin
pdb|1MFR|W Chain W, Crystal Structure Of M Ferritin
pdb|1MFR|X Chain X, Crystal Structure Of M Ferritin
Length = 176
Score = 25.0 bits (53), Expect = 5.4
Identities = 20/80 (25%), Positives = 40/80 (50%), Gaps = 7/80 (8%)
Query: 101 FFPPMTSEQRKLIAKDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQI 160
FF + E+R+ K K ++ R + QD +KK E+D+ + E+ +A Q+
Sbjct: 51 FFKEHSHEEREHAEKFMKYQNKRGG---RVVLQD----IKKPERDEWGNTLEAMQAALQL 103
Query: 161 QKITDEAIKKIDESVKNKED 180
+K ++A+ + + +K D
Sbjct: 104 EKTVNQALLDLHKLATDKVD 123
>pdb|1HUO|A Chain A, Crystal Structure Of Dna Polymerase Beta Complexed With
Dna And Cr-Tmppcp
pdb|1HUO|B Chain B, Crystal Structure Of Dna Polymerase Beta Complexed With
Dna And Cr-Tmppcp
pdb|1HUZ|A Chain A, Crystal Structure Of Dna Polymerase Complexed With Dna And
Cr-Pcp
pdb|1HUZ|B Chain B, Crystal Structure Of Dna Polymerase Complexed With Dna And
Cr-Pcp
pdb|2BPF|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7) Complexed With A Dna
Template-Primer, 2',3'-Dideoxycytidine 5'-Triphosphate
(Ddctp), And Mg
pdb|2BPG|A Chain A, Dna Polymerase Beta (E.C.2.7.7.7) Complexed With A Dna
Template-Primer And 2',3'-Dideoxycytidine
5'-Triphosphate (Ddctp)
pdb|2BPG|B Chain B, Dna Polymerase Beta (E.C.2.7.7.7) Complexed With A Dna
Template-Primer And 2',3'-Dideoxycytidine
5'-Triphosphate (Ddctp)
pdb|1BPD| Dna Polymerase Beta (Beta Polymerase) (E.C.2.7.7.7) (Apo, Full
Protein)
Length = 335
Score = 25.0 bits (53), Expect = 5.4
Identities = 24/113 (21%), Positives = 49/113 (43%), Gaps = 12/113 (10%)
Query: 75 LKEIERSIQEANIGVNPNNDGETIKLFFPPMTSEQRKLIAKDAKAMGEKAKVAVRNIRQD 134
L E+++ +A N ++ +P + K A+ K G K+A +
Sbjct: 22 LANFEKNVSQAIHKYNAYRKAASVIAKYP----HKIKSGAEAKKLPGVGTKIAEKIDEFL 77
Query: 135 ANNQVKKLEKDKEISEDESKKAQEQI--------QKITDEAIKKIDESVKNKE 179
A +++KLEK ++ S ++ +K+ DE IK +++ KN++
Sbjct: 78 ATGKLRKLEKIRQDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNED 130
>pdb|1MTY|D Chain D, Methane Monooxygenase Hydroxylase From Methylococcus
Capsulatus (Bath)
pdb|1MTY|E Chain E, Methane Monooxygenase Hydroxylase From Methylococcus
Capsulatus (Bath)
pdb|1MMO|D Chain D, Methane Monooxygenase Hydrolase (E.C.1.14.13.25) (Methane
Hydroxylase)
pdb|1MMO|E Chain E, Methane Monooxygenase Hydrolase (E.C.1.14.13.25) (Methane
Hydroxylase)
Length = 512
Score = 24.6 bits (52), Expect = 7.0
Identities = 21/64 (32%), Positives = 28/64 (42%), Gaps = 5/64 (7%)
Query: 76 KEIERSIQEANIGVNPNNDGETIKLFFPPMTSEQRKLIAKDAKAMGEKAKVAVRNIRQDA 135
+E+ R +Q N N K T EQ KLIAK+ M AV++ RQ
Sbjct: 12 QEVHRWLQSFNWDFKNNRTKYATKYKMANETKEQFKLIAKEYARM-----EAVKDERQFG 66
Query: 136 NNQV 139
+ QV
Sbjct: 67 SLQV 70
>pdb|1DMG|A Chain A, Crystal Structure Of Ribosomal Protein L4
Length = 225
Score = 24.6 bits (52), Expect = 7.0
Identities = 18/90 (20%), Positives = 44/90 (48%), Gaps = 5/90 (5%)
Query: 9 TKDLMQKSIQALNRDFSTLRSAKVSVNILDHIKVDYYGTPTALNQVGSVMSLDATTLQIS 68
+K L +K + R +++ + + +LD +K++ T + + ++ D TL +
Sbjct: 97 SKKLNKKMKKLALRSALSVKYRENKLLVLDDLKLERPKTKSLKEILQNLQLSDKKTLIVL 156
Query: 69 PWEKNLLKEIE---RSIQEANIGV--NPNN 93
PW++ ++ R++ + + + NPNN
Sbjct: 157 PWKEEGYMNVKLSGRNLPDVKVIIADNPNN 186
>pdb|1MWS|A Chain A, Structure Of Nitrocefin Acyl-Penicillin Binding Protein 2a
From Methicillin Resistant Staphylococcus Aureus Strain
27r At 2.00 A Resolution.
pdb|1MWS|B Chain B, Structure Of Nitrocefin Acyl-Penicillin Binding Protein 2a
From Methicillin Resistant Staphylococcus Aureus Strain
27r At 2.00 A Resolution.
pdb|1MWT|A Chain A, Structure Of Penicillin G Acyl-Penicillin Binding Protein
2a From Methicillin Resistant Staphylococcus Aureus
Strain 27r At 2.45 A Resolution.
pdb|1MWT|B Chain B, Structure Of Penicillin G Acyl-Penicillin Binding Protein
2a From Methicillin Resistant Staphylococcus Aureus
Strain 27r At 2.45 A Resolution.
pdb|1MWU|A Chain A, Structure Of Methicillin Acyl-Penicillin Binding Protein
2a From Methicillin Resistant Staphylococcus Aureus
Strain 27r At 2.60 A Resolution.
pdb|1MWU|B Chain B, Structure Of Methicillin Acyl-Penicillin Binding Protein
2a From Methicillin Resistant Staphylococcus Aureus
Strain 27r At 2.60 A Resolution
Length = 646
Score = 24.3 bits (51), Expect = 9.2
Identities = 15/43 (34%), Positives = 27/43 (61%), Gaps = 2/43 (4%)
Query: 22 RDFSTLRSAKVSVNILDHIKVDYYGTPTALN-QVGSVMSLDAT 63
+D AKV +I +++K DY G+ TA++ Q G +++L +T
Sbjct: 300 KDIQLTIDAKVQKSIYNNMKNDY-GSGTAIHPQTGELLALVST 341
>pdb|1QO5|A Chain A, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|M Chain M, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|P Chain P, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|H Chain H, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|D Chain D, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|J Chain J, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|E Chain E, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|K Chain K, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|F Chain F, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|B Chain B, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|C Chain C, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|G Chain G, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|I Chain I, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|L Chain L, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|N Chain N, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|O Chain O, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|Q Chain Q, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
pdb|1QO5|R Chain R, Fructose 1,6-Bisphosphate Aldolase From Human Liver Tissue
Length = 363
Score = 24.3 bits (51), Expect = 9.2
Identities = 14/69 (20%), Positives = 35/69 (50%), Gaps = 1/69 (1%)
Query: 102 FPPMTSEQRKLIAKDAKAMGEKAKVAVRNIRQDANNQVKKLEKDKEISEDESKKAQEQIQ 161
FP +T EQ+K +++ A+++ K + + +L++ K + +E+++ +I
Sbjct: 4 FPALTQEQKKELSEIAQSIVANGK-GILAADESVGTMGNRLQRIKVENTEENRRQFREIL 62
Query: 162 KITDEAIKK 170
D +I +
Sbjct: 63 FSVDSSINQ 71
>pdb|1I0A|A Chain A, Crystal Structure Of Wild Type Turkey Delta 1 Crystallin
(Eye Lens Protein)
pdb|1I0A|C Chain C, Crystal Structure Of Wild Type Turkey Delta 1 Crystallin
(Eye Lens Protein)
pdb|1I0A|B Chain B, Crystal Structure Of Wild Type Turkey Delta 1 Crystallin
(Eye Lens Protein)
pdb|1I0A|D Chain D, Crystal Structure Of Wild Type Turkey Delta 1 Crystallin
(Eye Lens Protein)
Length = 466
Score = 24.3 bits (51), Expect = 9.2
Identities = 12/41 (29%), Positives = 24/41 (58%)
Query: 140 KKLEKDKEISEDESKKAQEQIQKITDEAIKKIDESVKNKED 180
K LEK +++ E +K ++KI++E+ K + ++ ED
Sbjct: 47 KALEKASILTKTELEKILSGLEKISEESSKGVLVMTQSDED 87
>pdb|1MWX|A Chain A, Structure Of Penicillin Binding Protein 2a From
Methicillin Resistant Staphylococcus Aureus Strain 27r
At 1.80 A Resolution.
pdb|1MWX|B Chain B, Structure Of Penicillin Binding Protein 2a From
Methicillin Resistant Staphylococcus Aureus Strain 27r
At 1.80 A Resolution
Length = 646
Score = 24.3 bits (51), Expect = 9.2
Identities = 15/43 (34%), Positives = 27/43 (61%), Gaps = 2/43 (4%)
Query: 22 RDFSTLRSAKVSVNILDHIKVDYYGTPTALN-QVGSVMSLDAT 63
+D AKV +I +++K DY G+ TA++ Q G +++L +T
Sbjct: 300 KDIQLTIDAKVQKSIYNNMKNDY-GSGTAIHPQTGELLALVST 341
>pdb|1BPE| Dna Polymerase Beta (Beta Polymerase) (E.C.2.7.7.7) Full Protein
Complexed With Deoxy-Atp
Length = 335
Score = 24.3 bits (51), Expect = 9.2
Identities = 24/113 (21%), Positives = 48/113 (42%), Gaps = 12/113 (10%)
Query: 75 LKEIERSIQEANIGVNPNNDGETIKLFFPPMTSEQRKLIAKDAKAMGEKAKVAVRNIRQD 134
L E+++ +A N ++ +P + K A+ K G K+A +
Sbjct: 22 LANFEKNVSQAIHKYNAYRKAASVIAKYP----HKIKSGAEAKKLPGVGTKIAEKIDEFL 77
Query: 135 ANNQVKKLEKDKEISEDESKKAQEQI--------QKITDEAIKKIDESVKNKE 179
A +++KLEK + S ++ +K+ DE IK +++ KN++
Sbjct: 78 ATGKLRKLEKIRRDDTSSSINFLTRVTGIGPSAARKLVDEGIKTLEDLRKNED 130
Database: /var/www/html/HP/blast_new/blast/db/pdbaa
Posted date: Dec 20, 2002 11:08 AM
Number of letters in database: 2,899,336
Number of sequences in database: 13,198
Lambda K H
0.309 0.127 0.327
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 907,823
Number of Sequences: 13198
Number of extensions: 33535
Number of successful extensions: 140
Number of sequences better than 10.0: 25
Number of HSP's better than 10.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 111
Number of HSP's gapped (non-prelim): 37
length of query: 185
length of database: 2,899,336
effective HSP length: 83
effective length of query: 102
effective length of database: 1,803,902
effective search space: 183998004
effective search space used: 183998004
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 51 (24.3 bits)