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|15644804|ref|NP_206974.1| cell binding factor 2
[Helicobacter pylori 26695]
(299 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|1FJD|A Chain A, Human Parvulin-Like Peptidyl Prolyl Cis... 49 9e-07
pdb|1EQ3|A Chain A, Nmr Structure Of Human Parvulin Hpar14 49 9e-07
pdb|1J6Y|A Chain A, Solution Structure Of Pin1at From Arabi... 45 1e-05
pdb|1PIN|A Chain A, Pin1 Peptidyl-Prolyl Cis-Trans Isomeras... 44 3e-05
pdb|1F8A|B Chain B, Structural Basis For The Phosphoserine-... 44 3e-05
pdb|1A6D|A Chain A, Thermosome From T. Acidophilum >gi|4699... 31 0.20
pdb|1ASS| Apical Domain Of The Chaperonin From Thermoplas... 30 0.26
pdb|1F1M|A Chain A, Crystal Structure Of Outer Surface Prot... 29 0.57
pdb|1EIK|A Chain A, Solution Structure Of Rna Polymerase Su... 28 0.97
pdb|1SFT|A Chain A, Alanine Racemase >gi|3891941|pdb|1BD0|A... 28 1.3
pdb|1L6F|A Chain A, Alanine Racemase Bound With N-(5'-Phosp... 28 1.7
pdb|1IWG|A Chain A, Crystal Structure Of Bacterial Multidru... 27 2.8
pdb|1A6D|B Chain B, Thermosome From T. Acidophilum >gi|4699... 26 6.3
pdb|1B5Q|B Chain B, A 30 Angstrom U-Shaped Catalytic Tunnel... 25 8.2
>pdb|1FJD|A Chain A, Human Parvulin-Like Peptidyl Prolyl CisTRANS ISOMERASE,
Hpar14
Length = 104
Score = 48.5 bits (114), Expect = 9e-07
Identities = 34/95 (35%), Positives = 47/95 (48%), Gaps = 15/95 (15%)
Query: 160 RHILVKTEDEAKRIISEIDKQPKAKKEAKFIELANRDTIDPNSKNAQNGGDLGKFQKNQM 219
RHIL + + ++ K K +F E+A + + D A+ GGDLG + M
Sbjct: 14 RHILCEKHGKI------MEAMEKLKSGMRFNEVAAQYSED----KARQGGDLGWMTRGSM 63
Query: 220 APDFSKAAFALTPGD-----YTKTPVKTEFGYHII 249
F +AAFAL +T PVKT+FGYHII
Sbjct: 64 VGPFQEAAFALPVSGMDKPVFTDPPVKTKFGYHII 98
>pdb|1EQ3|A Chain A, Nmr Structure Of Human Parvulin Hpar14
Length = 96
Score = 48.5 bits (114), Expect = 9e-07
Identities = 34/95 (35%), Positives = 47/95 (48%), Gaps = 15/95 (15%)
Query: 160 RHILVKTEDEAKRIISEIDKQPKAKKEAKFIELANRDTIDPNSKNAQNGGDLGKFQKNQM 219
RHIL + + ++ K K +F E+A + + D A+ GGDLG + M
Sbjct: 6 RHILCEKHGKI------MEAMEKLKSGMRFNEVAAQYSED----KARQGGDLGWMTRGSM 55
Query: 220 APDFSKAAFALTPGD-----YTKTPVKTEFGYHII 249
F +AAFAL +T PVKT+FGYHII
Sbjct: 56 VGPFQEAAFALPVSGMDKPVFTDPPVKTKFGYHII 90
>pdb|1J6Y|A Chain A, Solution Structure Of Pin1at From Arabidopsis Thaliana
Length = 139
Score = 45.1 bits (105), Expect = 1e-05
Identities = 31/95 (32%), Positives = 49/95 (50%), Gaps = 5/95 (5%)
Query: 155 QEAHARHILVKTEDEAKRIISEIDKQPKAKKEAKFIELANRDTIDPNSKNAQNGGDLGKF 214
++ + IL T + A + I ++ +A F E+A R + + +A+ GGDLG F
Sbjct: 46 KDPEGKIILTTTREAAVEQLKSI-REDIVSGKANFEEVATRVS---DCSSAKRGGDLGSF 101
Query: 215 QKNQMAPDFSKAAFALTPGDYTKTPVKTEFGYHII 249
+ QM F +A +AL GD + V T+ G HII
Sbjct: 102 GRGQMQKPFEEATYALKVGDISDI-VDTDSGVHII 135
>pdb|1PIN|A Chain A, Pin1 Peptidyl-Prolyl Cis-Trans Isomerase From Homo Sapiens
Length = 163
Score = 43.5 bits (101), Expect = 3e-05
Identities = 30/87 (34%), Positives = 51/87 (58%), Gaps = 5/87 (5%)
Query: 163 LVKTEDEAKRIISEIDKQPKAKKEAKFIELANRDTIDPNSKNAQNGGDLGKFQKNQMAPD 222
+ +T++EA +I+ ++ K+ +E F LA++ + + +A+ GDLG F + QM
Sbjct: 78 ITRTKEEALELINGYIQKIKSGEE-DFESLASQFS---DCSSAKARGDLGAFSRGQMQKP 133
Query: 223 FSKAAFALTPGDYTKTPVKTEFGYHII 249
F A+FAL G+ + PV T+ G HII
Sbjct: 134 FEDASFALRTGEMS-GPVFTDSGIHII 159
>pdb|1F8A|B Chain B, Structural Basis For The Phosphoserine-Proline Recognition
By Group Iv Ww Domains
Length = 167
Score = 43.5 bits (101), Expect = 3e-05
Identities = 30/87 (34%), Positives = 51/87 (58%), Gaps = 5/87 (5%)
Query: 163 LVKTEDEAKRIISEIDKQPKAKKEAKFIELANRDTIDPNSKNAQNGGDLGKFQKNQMAPD 222
+ +T++EA +I+ ++ K+ +E F LA++ + + +A+ GDLG F + QM
Sbjct: 82 ITRTKEEALELINGYIQKIKSGEE-DFESLASQFS---DCSSAKARGDLGAFSRGQMQKP 137
Query: 223 FSKAAFALTPGDYTKTPVKTEFGYHII 249
F A+FAL G+ + PV T+ G HII
Sbjct: 138 FEDASFALRTGEMS-GPVFTDSGIHII 163
>pdb|1A6D|A Chain A, Thermosome From T. Acidophilum
pdb|1A6E|A Chain A, Thermosome - Mg-Adp-Alf3 Complex
Length = 545
Score = 30.8 bits (68), Expect = 0.20
Identities = 38/186 (20%), Positives = 71/186 (37%), Gaps = 15/186 (8%)
Query: 14 LSTSFL--MAKPAHNANNATHNTKKTTDSSAGVLATVDGRPITKSDFD---MIKQRNPNF 68
LS FL + A NA + K D++ + +G + + F +I + +
Sbjct: 166 LSNDFLADLVVKAVNAVAEVRDGKTIVDTANIKVDKKNGGSVNDTQFISGIVIDKEKVHS 225
Query: 69 DFDKLKEKEKEALIDQAIRTALVENEAKTEKLD----------STPEFKAMMEAVKKQAL 118
+ + K ALID A+ E EAK + D T FK M+E +KK
Sbjct: 226 KMPDVVKNAKIALIDSALEIKKTEIEAKVQISDPSKIQDFLNQETNTFKQMVEKIKKSGA 285
Query: 119 VEFWAKKQAEEVKKVQIPEKEMQDFYNANKDQLFVKQEAHARHILVKTEDEAKRIISEID 178
+K ++V + + ++ + K + +A I+ +D ++ E +
Sbjct: 286 NVVLCQKGIDDVAQHYLAKEGIYAVRRVKKSDMEKLAKATGAKIVTDLDDLTPSVLGEAE 345
Query: 179 KQPKAK 184
+ K
Sbjct: 346 TVEERK 351
>pdb|1ASS| Apical Domain Of The Chaperonin From Thermoplasma Acidophilum
pdb|1ASX| Apical Domain Of The Chaperonin From Thermoplasma Acidophilum
Length = 159
Score = 30.4 bits (67), Expect = 0.26
Identities = 26/117 (22%), Positives = 46/117 (39%), Gaps = 10/117 (8%)
Query: 78 KEALIDQAIRTALVENEAKTEKLD----------STPEFKAMMEAVKKQALVEFWAKKQA 127
K ALID A+ E EAK + D T FK M+E +KK +K
Sbjct: 23 KIALIDSALEIKKTEIEAKVQISDPSKIQDFLNQETNTFKQMVEKIKKSGANVVLCQKGI 82
Query: 128 EEVKKVQIPEKEMQDFYNANKDQLFVKQEAHARHILVKTEDEAKRIISEIDKQPKAK 184
++V + + ++ + K + +A I+ +D ++ E + + K
Sbjct: 83 DDVAQHYLAKEGIYAVRRVKKSDMEKLAKATGAKIVTDLDDLTPSVLGEAETVEERK 139
>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 = 29.3 bits (64), Expect = 0.57
Identities = 43/163 (26%), Positives = 65/163 (39%), Gaps = 19/163 (11%)
Query: 29 NATHNTKKTTDSSAGVLATVDGRPITKSDFDMIKQRNPNFDFDKLKEKEKE---ALIDQA 85
N T +KK T+S+A VLA + + S ++ K D + E + +L+ A
Sbjct: 4 NLTEISKKITESNAVVLAVKEVETLLTSIDELAKAIGKKIKSDVSLDNEADHNGSLMSGA 63
Query: 86 --IRTALVENEAKTEKLDSTPEFKAMMEAVKKQALVEFWAKKQAEEVKKVQIPEKEMQDF 143
I T + + K + + E KA +E KK EF AK + E KE
Sbjct: 64 YLISTLITK---KISAIKDSGELKAEIEKAKK-CSEEFTAKLKGEHTDL----GKEGVTD 115
Query: 144 YNANKDQLFVKQEAHARHILVKTEDEAKRIISEIDKQPKAKKE 186
NA K L + K DE +++ + KA KE
Sbjct: 116 DNAKKAILKTNNDK------TKGADELEKLFESVKNLSKAAKE 152
>pdb|1EIK|A Chain A, Solution Structure Of Rna Polymerase Subunit Rpb5 From
Methanobacterium Thermoautotrophicum
Length = 77
Score = 28.5 bits (62), Expect = 0.97
Identities = 20/73 (27%), Positives = 36/73 (48%), Gaps = 11/73 (15%)
Query: 153 VKQEAHARHILVKTEDEAKRIISEIDKQPKAKKEAKFIELANRDTIDPNSK--NAQNGGD 210
+K + H+++ E EAKR++ E+D P+ +L T DP +K A+ G
Sbjct: 6 LKHQLVPEHVILN-ESEAKRVLKELDAHPE--------QLPKIKTTDPVAKAIGAKRGDI 56
Query: 211 LGKFQKNQMAPDF 223
+ +K+ A +F
Sbjct: 57 VKIIRKSPTAEEF 69
>pdb|1SFT|A Chain A, Alanine Racemase
pdb|1BD0|A Chain A, Alanine Racemase Complexed With Alanine Phosphonate
pdb|1BD0|B Chain B, Alanine Racemase Complexed With Alanine Phosphonate
pdb|1SFT|B Chain B, Alanine Racemase
Length = 388
Score = 28.1 bits (61), Expect = 1.3
Identities = 13/47 (27%), Positives = 24/47 (50%)
Query: 153 VKQEAHARHILVKTEDEAKRIISEIDKQPKAKKEAKFIELANRDTID 199
+K + + VK E+E KRI++ I++ P E + A D ++
Sbjct: 128 LKMDTGMGRLGVKDEEETKRIVALIERHPHFVLEGLYTHFATADEVN 174
>pdb|1L6F|A Chain A, Alanine Racemase Bound With N-(5'-Phosphopyridoxyl)-L-
Alanine
pdb|1L6F|B Chain B, Alanine Racemase Bound With N-(5'-Phosphopyridoxyl)-L-
Alanine
pdb|1L6G|A Chain A, Alanine Racemase Bound With N-(5'-Phosphopyridoxyl)-D-
Alanine
pdb|1L6G|B Chain B, Alanine Racemase Bound With N-(5'-Phosphopyridoxyl)-D-
Alanine
pdb|2SFP|A Chain A, Alanine Racemase With Bound Propionate Inhibitor
pdb|2SFP|B Chain B, Alanine Racemase With Bound Propionate Inhibitor
Length = 388
Score = 27.7 bits (60), Expect = 1.7
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 164 VKTEDEAKRIISEIDKQPKAKKEAKFIELANRDTID 199
VK E+E KRI++ I++ P E + A D ++
Sbjct: 139 VKDEEETKRIVALIERHPHFVLEGLYTHFATADEVN 174
>pdb|1IWG|A Chain A, Crystal Structure Of Bacterial Multidrug Efflux
Transporter Acrb
Length = 1053
Score = 26.9 bits (58), Expect = 2.8
Identities = 20/73 (27%), Positives = 35/73 (47%), Gaps = 3/73 (4%)
Query: 46 ATVDGRPITKSDFDMIKQRNPNFDFDKLKEKEKEALIDQAIRTALVENEAKTEKLDSTPE 105
A V+ T DF++I Q +KL + + L + A ++ + + L+ TP+
Sbjct: 670 AIVELGTATGFDFELIDQAG--LGHEKLTQARNQLLAEAAKHPDMLTS-VRPNGLEDTPQ 726
Query: 106 FKAMMEAVKKQAL 118
FK ++ K QAL
Sbjct: 727 FKIDIDQEKAQAL 739
>pdb|1A6D|B Chain B, Thermosome From T. Acidophilum
pdb|1A6E|B Chain B, Thermosome - Mg-Adp-Alf3 Complex
Length = 543
Score = 25.8 bits (55), Expect = 6.3
Identities = 39/155 (25%), Positives = 63/155 (40%), Gaps = 20/155 (12%)
Query: 71 DKLKEKEKEAL-IDQAIRTALVENEAKTEKLDSTPEFKAMMEAVK--KQALVEFWAKKQA 127
D +KE + A+ I ++R++L +DS + + V K+ VE A K
Sbjct: 21 DAMKENIEAAIAISNSVRSSLGPRGMDKMLVDSLGDIVITNDGVTILKEMDVEHPAAKMM 80
Query: 128 EEVKKVQIPEKEMQDFYNA---------NKDQLFVKQEAHARHILV---KTEDEAKRIIS 175
EV K Q + + D + Q + Q H I +EAKR+I
Sbjct: 81 VEVSKTQ--DSFVGDGTTTAVIIAGGLLQQAQGLINQNVHPTVISEGYRMASEEAKRVID 138
Query: 176 EIDKQPKAKKEAKFIELANRDTIDPNSKNAQNGGD 210
EI + A ++A +++A NSK+A D
Sbjct: 139 EISTKIGADEKALLLKMAQTSL---NSKSASVAKD 170
>pdb|1B5Q|B Chain B, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1B5Q|C Chain C, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1H82|B Chain B, Structure Of Polyamine Oxidase In Complex With Guazatine
pdb|1H82|C Chain C, Structure Of Polyamine Oxidase In Complex With Guazatine
pdb|1H83|B Chain B, Structure Of Polyamine Oxidase In Complex With
1,8-Diaminooctane
pdb|1H83|C Chain C, Structure Of Polyamine Oxidase In Complex With
1,8-Diaminooctane
pdb|1B37|B Chain B, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1B37|C Chain C, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1H84|B Chain B, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 4.6
pdb|1H84|C Chain C, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 4.6
pdb|1H86|B Chain B, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 7.0
pdb|1H86|C Chain C, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 7.0
pdb|1H81|B Chain B, Structure Of Polyamine Oxidase In The Reduced State
pdb|1H81|C Chain C, Structure Of Polyamine Oxidase In The Reduced State
pdb|1B5Q|A Chain A, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1H82|A Chain A, Structure Of Polyamine Oxidase In Complex With Guazatine
pdb|1H83|A Chain A, Structure Of Polyamine Oxidase In Complex With
1,8-Diaminooctane
pdb|1B37|A Chain A, A 30 Angstrom U-Shaped Catalytic Tunnel In The Crystal
Structure Of Polyamine Oxidase
pdb|1H84|A Chain A, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 4.6
pdb|1H86|A Chain A, Covalent Adduct Between Polyamine Oxidase And N1ethyln11
((Cycloheptyl)methyl)4,8diazaundecane At Ph 7.0
pdb|1H81|A Chain A, Structure Of Polyamine Oxidase In The Reduced State
Length = 472
Score = 25.4 bits (54), Expect = 8.2
Identities = 15/36 (41%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 150 QLFVKQEAHARHILVK-TEDEAKRIISEIDKQPKAK 184
Q F KQ A +LV T++E++RI + D+Q KA+
Sbjct: 333 QEFEKQYPDANVLLVTVTDEESRRIEQQSDEQTKAE 368
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
0.312 0.128 0.347
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,632,497
Number of Sequences: 13198
Number of extensions: 67401
Number of successful extensions: 133
Number of sequences better than 10.0: 14
Number of HSP's better than 10.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 124
Number of HSP's gapped (non-prelim): 14
length of query: 299
length of database: 2,899,336
effective HSP length: 88
effective length of query: 211
effective length of database: 1,737,912
effective search space: 366699432
effective search space used: 366699432
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)