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|15645656|ref|NP_207832.1| hypothetical protein
[Helicobacter pylori 26695]
(348 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|1IGY|B Chain B, Structure Of Immunoglobulin >gi|3114314... 31 0.24
pdb|1JKW| Structure Of Cyclin Mcs2 30 0.31
pdb|1BBD|H Chain H, Fab Fragment Of 8f5 Antibody Against Hu... 30 0.31
pdb|1KXU| Cyclin H, A Positive Regulatory Subunit Of Cdk ... 30 0.31
pdb|1DCE|C Chain C, Crystal Structure Of Rab Geranylgeranyl... 30 0.41
pdb|1HYR|B Chain B, Crystal Structure Of Human Mica In Comp... 28 1.5
pdb|1KCG|B Chain B, Nkg2d In Complex With Ulbp3 >gi|1815864... 28 1.5
pdb|1YED|B Chain B, Structure Of A Catalytic Antibody Igg2a... 28 2.0
pdb|1MRE|H Chain H, Igg Jel 103 Fab Fragment Complexed With... 27 2.6
pdb|1YEE|H Chain H, Structure Of A Catalytic Antibody, Igg2... 27 2.6
pdb|1YEJ|H Chain H, Catalytic Antibody Complex >gi|4389134|... 27 2.6
pdb|1FIG|H Chain H, Immunoglobulin G1 (Kappa Light Chain) F... 27 2.6
pdb|1KTR|H Chain H, Crystal Structure Of The Anti-His Tag A... 27 3.4
pdb|1NQB|A Chain A, Trivalent Antibody Fragment >gi|2392475... 27 3.4
pdb|1J5S|A Chain A, Crystal Structure Of Uronate Isomerase ... 26 5.9
pdb|1RVF|H Chain H, Fab Complexed With Intact Human Rhinovirus 26 5.9
pdb|25C8|H Chain H, Catalytic Antibody 5c8, Fab-Hapten Comp... 26 5.9
pdb|3FCT|B Chain B, Mature Metal Chelatase Catalytic Antibo... 26 5.9
pdb|1FOR|H Chain H, Igg2a Fab Fragment (Fab17-Ia) (Orthorho... 26 5.9
pdb|1F3D|H Chain H, Catalytic Antibody 4b2 In Complex With ... 26 7.7
pdb|1B4J|H Chain H, Comparison Of The Three-Dimensional Str... 26 7.7
pdb|1OPG|H Chain H, Opg2 Fab Fragment >gi|4930277|pdb|1BM3|... 26 7.7
pdb|1IGJ|B Chain B, Fab (Igg2a,Kappa) Fragment (26-10) Comp... 26 7.7
>pdb|1IGY|B Chain B, Structure Of Immunoglobulin
pdb|1IGY|D Chain D, Structure Of Immunoglobulin
Length = 434
Score = 30.8 bits (68), Expect = 0.24
Identities = 18/51 (35%), Positives = 25/51 (48%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYYQDKKGFLSYSMGGISVLANLFLTQNP 280
T D S+ A HL SL D +VYY ++G + Y G +V + T P
Sbjct: 70 TRDRSSNTANIHLSSLTSDDSAVYYCVREGEVPYWGQGTTVTVSSAKTTPP 120
>pdb|1JKW| Structure Of Cyclin Mcs2
Length = 323
Score = 30.4 bits (67), Expect = 0.31
Identities = 33/121 (27%), Positives = 47/121 (38%), Gaps = 19/121 (15%)
Query: 14 GYACQLVSKQFFKNIQCYNANYGREVSARIYEILNAIAQSKESEFLILVSDLNLNLNEAE 73
G AC + K+F+ N N E RI + A K EF + NL E+
Sbjct: 81 GTAC-MYFKRFYLN------NSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESP 133
Query: 74 YLQDKIQEHRLQNKNIQIQLLDHHISGKEVAESFHWYFLDINRCATKIVYEFLKKHYAIL 133
Q+K E L+ + + IQ L+ H+ F + +D LK Y IL
Sbjct: 134 LGQEKALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLID------------LKTRYPIL 181
Query: 134 E 134
E
Sbjct: 182 E 182
>pdb|1BBD|H Chain H, Fab Fragment Of 8f5 Antibody Against Human Rhinovirus
Serotype 2
pdb|1A3R|H Chain H, Fab Fragment (Antibody 8f5) Complexed With Peptide From
Human Rhinovirus (Serotype 2) Viral Capsid Protein Vp2
(Residues 156 - 170)
Length = 218
Score = 30.4 bits (67), Expect = 0.31
Identities = 16/34 (47%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYYQDKKGFLSY 263
T+D S+ A HL SL D +VYY D G+ SY
Sbjct: 71 TVDTSSNTAYLHLSSLTSEDTAVYYCD--GYYSY 102
>pdb|1KXU| Cyclin H, A Positive Regulatory Subunit Of Cdk Activating Kinase
Length = 333
Score = 30.4 bits (67), Expect = 0.31
Identities = 33/121 (27%), Positives = 47/121 (38%), Gaps = 19/121 (15%)
Query: 14 GYACQLVSKQFFKNIQCYNANYGREVSARIYEILNAIAQSKESEFLILVSDLNLNLNEAE 73
G AC + K+F+ N N E RI + A K EF + NL E+
Sbjct: 91 GTAC-MYFKRFYLN------NSVMEYHPRIIMLTCAFLACKVDEFNVSSPQFVGNLRESP 143
Query: 74 YLQDKIQEHRLQNKNIQIQLLDHHISGKEVAESFHWYFLDINRCATKIVYEFLKKHYAIL 133
Q+K E L+ + + IQ L+ H+ F + +D LK Y IL
Sbjct: 144 LGQEKALEQILEYELLLIQQLNFHLIVHNPYRPFEGFLID------------LKTRYPIL 191
Query: 134 E 134
E
Sbjct: 192 E 192
>pdb|1DCE|C Chain C, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
pdb|1DCE|A Chain A, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
Length = 567
Score = 30.0 bits (66), Expect = 0.41
Identities = 23/99 (23%), Positives = 41/99 (41%), Gaps = 6/99 (6%)
Query: 164 GKVCMRMINQSSELNRFMFDDENRNYKLKLLEEVKNYLFLENAPVAYDNDLFKLKKIALG 223
G++ ++ + +E R R KLKL + +F + D + +L LG
Sbjct: 3 GRLKVKTSEEQAEAKRL-----EREQKLKLYQSATQAVFQKRQAGELDESVLELTSQILG 57
Query: 224 GDPDAETMDNISSNAQTHLLSLKK-HDCSVYYQDKKGFL 261
+PD T+ N HL + K + + + + GFL
Sbjct: 58 ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFL 96
>pdb|1HYR|B Chain B, Crystal Structure Of Human Mica In Complex With Natural
Killer Cell Receptor Nkg2d
pdb|1HYR|A Chain A, Crystal Structure Of Human Mica In Complex With Natural
Killer Cell Receptor Nkg2d
Length = 137
Score = 28.1 bits (61), Expect = 1.5
Identities = 24/93 (25%), Positives = 38/93 (40%), Gaps = 10/93 (10%)
Query: 178 NRFMFDDENRNYKLKLLEEVKNYLFLENAPVAYDNDLFKLKK---------IALGGDPDA 228
N + F DE++N+ + L D DL KL K I G
Sbjct: 30 NCYQFFDESKNWYESQASCMSQNASLLKVYSKEDQDLLKLVKSYHWMGLVHIPTNGSWQW 89
Query: 229 ETMDNISSNAQTHLLSLKKHDCSVYYQDKKGFL 261
E +S N T ++ ++K DC++Y KG++
Sbjct: 90 EDGSILSPNLLT-IIEMQKGDCALYASSFKGYI 121
>pdb|1KCG|B Chain B, Nkg2d In Complex With Ulbp3
pdb|1KCG|A Chain A, Nkg2d In Complex With Ulbp3
Length = 124
Score = 28.1 bits (61), Expect = 1.5
Identities = 24/93 (25%), Positives = 38/93 (40%), Gaps = 10/93 (10%)
Query: 178 NRFMFDDENRNYKLKLLEEVKNYLFLENAPVAYDNDLFKLKK---------IALGGDPDA 228
N + F DE++N+ + L D DL KL K I G
Sbjct: 17 NCYQFFDESKNWYESQASCMSQNASLLKVYSKEDQDLLKLVKSYHWMGLVHIPTNGSWQW 76
Query: 229 ETMDNISSNAQTHLLSLKKHDCSVYYQDKKGFL 261
E +S N T ++ ++K DC++Y KG++
Sbjct: 77 EDGSILSPNLLT-IIEMQKGDCALYASSFKGYI 108
>pdb|1YED|B Chain B, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.4)
pdb|1YED|H Chain H, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.4)
Length = 226
Score = 27.7 bits (60), Expect = 2.0
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYYQDKKGF 260
T D SS A L SLK D +VY+ + GF
Sbjct: 71 TADKSSSTAYMQLSSLKSEDSAVYFCTRWGF 101
>pdb|1MRE|H Chain H, Igg Jel 103 Fab Fragment Complexed With
Guanosine-5'-Diphosphate
pdb|1MRF|H Chain H, Igg Jel 103 Fab Fragment Complexed With
Deoxyinosine-5'-Monophosphate
pdb|1MRD|H Chain H, Igg Jel 103 Fab Fragment Complexed With
Inosine-5'-Diphosphate
pdb|1MRC|H Chain H, Igg Jel 103 Fab Fragment
Length = 215
Score = 27.3 bits (59), Expect = 2.6
Identities = 17/52 (32%), Positives = 25/52 (47%), Gaps = 1/52 (1%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYY-QDKKGFLSYSMGGISVLANLFLTQNP 280
T+D SS A L SL D +VYY + +G+ Y G ++ + T P
Sbjct: 71 TVDTSSSTAYMQLSSLTSEDSAVYYCANLRGYFDYWGQGTTLTVSSAKTTPP 122
>pdb|1YEE|H Chain H, Structure Of A Catalytic Antibody, Igg2a Fab Fragment
(D2.5)
Length = 222
Score = 27.3 bits (59), Expect = 2.6
Identities = 14/32 (43%), Positives = 18/32 (55%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYYQDKKGFL 261
T D SS A L SLK D +VY+ + GF+
Sbjct: 71 TADKSSSTAYMQLSSLKSDDSAVYFCVRWGFI 102
>pdb|1YEJ|H Chain H, Catalytic Antibody Complex
pdb|1YEI|H Chain H, Catalytic Antibody D2.3 Complex
pdb|1KN2|H Chain H, Catalytic Antibody D2.3 Complex
pdb|1KN4|H Chain H, Catalytic Antibody D2.3 Complex
pdb|1YEC|H Chain H, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.3)
pdb|1YEG|H Chain H, Structure Of Igg2a Fab Fragment (D2.3) Complexed With
Reaction Product
pdb|1YEF|H Chain H, Structure Of Igg2a Fab Fragment (D2.3) Complexed With
Substrate Analogue
pdb|1YEK|H Chain H, Catalytic Antibody D2.3 Complex
pdb|1YEH|H Chain H, Structure Of Igg2a Fab Fragment
Length = 222
Score = 27.3 bits (59), Expect = 2.6
Identities = 13/32 (40%), Positives = 18/32 (55%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYYQDKKGFL 261
T D SS A L +LK D +VY+ + GF+
Sbjct: 71 TADKSSSTAYMQLSTLKSEDSAVYFCTRWGFI 102
>pdb|1FIG|H Chain H, Immunoglobulin G1 (Kappa Light Chain) Fab' Fragment
Length = 216
Score = 27.3 bits (59), Expect = 2.6
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYY 254
T+D SS HL SL+ D +VYY
Sbjct: 71 TVDKSSSTLYMHLTSLQSEDSAVYY 95
>pdb|1KTR|H Chain H, Crystal Structure Of The Anti-His Tag Antibody 3d5 Single-
Chain Fragment (Scfv) In Complex With A Oligohistidine
Peptide
Length = 114
Score = 26.9 bits (58), Expect = 3.4
Identities = 14/37 (37%), Positives = 18/37 (47%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYYQDKKGFLSYSMG 266
T+D SS A L SL D SVYY + + + G
Sbjct: 71 TVDKSSSTAYMELRSLTSEDSSVYYCESQSGAYWGQG 107
>pdb|1NQB|A Chain A, Trivalent Antibody Fragment
pdb|1NQB|C Chain C, Trivalent Antibody Fragment
Length = 256
Score = 26.9 bits (58), Expect = 3.4
Identities = 20/58 (34%), Positives = 28/58 (47%), Gaps = 7/58 (12%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYY---QDKKGFLSYSMGG----ISVLANLFLTQNP 280
T+D SS A L SL D +VYY D G + G ++V +++ LTQ P
Sbjct: 71 TVDKPSSTAYMQLSSLTSEDSAVYYCARYDYYGSSYFDYWGQGTTVTVSSDIELTQTP 128
>pdb|1J5S|A Chain A, Crystal Structure Of Uronate Isomerase (Tm0064) From
Thermotoga Maritima At 2.85 A Resolution
pdb|1J5S|B Chain B, Crystal Structure Of Uronate Isomerase (Tm0064) From
Thermotoga Maritima At 2.85 A Resolution
pdb|1J5S|C Chain C, Crystal Structure Of Uronate Isomerase (Tm0064) From
Thermotoga Maritima At 2.85 A Resolution
Length = 463
Score = 26.2 bits (56), Expect = 5.9
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 6/61 (9%)
Query: 111 FLDINRCATKIVYEFLKKHYAILEPKNTTWLEPLVEMVNSVDIWDTQG----YGFELGKV 166
+L NR A ++ E K I++P N + +VE DIW+ +G Y +EL +
Sbjct: 19 YLLTNRAAVRLFNEV--KDLPIVDPHNHLDAKDIVENKPWNDIWEVEGATDHYVWELMRR 76
Query: 167 C 167
C
Sbjct: 77 C 77
>pdb|1RVF|H Chain H, Fab Complexed With Intact Human Rhinovirus
Length = 119
Score = 26.2 bits (56), Expect = 5.9
Identities = 13/36 (36%), Positives = 18/36 (49%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYYQDKKGFLSYSM 265
T D S+ A L SL D +VY+ + G Y+M
Sbjct: 71 TADKSSTTAYMQLYSLTSEDSAVYFCARSGNYPYAM 106
>pdb|25C8|H Chain H, Catalytic Antibody 5c8, Fab-Hapten Complex
pdb|35C8|H Chain H, Catalytic Antibody 5c8, Fab-Inhibitor Complex
pdb|15C8|H Chain H, Catalytic Antibody 5c8, Free Fab
Length = 217
Score = 26.2 bits (56), Expect = 5.9
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYY 254
T D S+ A HL SL D +VYY
Sbjct: 71 TADTSSNTAYLHLSSLTSEDSAVYY 95
>pdb|3FCT|B Chain B, Mature Metal Chelatase Catalytic Antibody With Hapten
pdb|3FCT|D Chain D, Mature Metal Chelatase Catalytic Antibody With Hapten
Length = 216
Score = 26.2 bits (56), Expect = 5.9
Identities = 16/51 (31%), Positives = 25/51 (48%), Gaps = 1/51 (1%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYYQDKKGFLSYSMGGISVLANLFLTQNP 280
T+D S+ A L SL D +VYY ++ + Y G +V + T+ P
Sbjct: 71 TVDKPSNTAYMQLSSLTSEDSAVYYCTRRD-MDYWGAGTTVTVSSASTKGP 120
>pdb|1FOR|H Chain H, Igg2a Fab Fragment (Fab17-Ia) (Orthorhombic Crystal Form)
Length = 219
Score = 26.2 bits (56), Expect = 5.9
Identities = 13/36 (36%), Positives = 18/36 (49%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYYQDKKGFLSYSM 265
T D S+ A L SL D +VY+ + G Y+M
Sbjct: 71 TADKSSTTAYMQLYSLTSEDSAVYFCARSGNYPYAM 106
>pdb|1F3D|H Chain H, Catalytic Antibody 4b2 In Complex With Its Amidinium
Hapten.
pdb|1F3D|K Chain K, Catalytic Antibody 4b2 In Complex With Its Amidinium
Hapten
Length = 217
Score = 25.8 bits (55), Expect = 7.7
Identities = 13/25 (52%), Positives = 15/25 (60%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYY 254
T+D SS A HL SL D +VYY
Sbjct: 71 TVDKSSSTAFMHLNSLTFEDSAVYY 95
>pdb|1B4J|H Chain H, Comparison Of The Three-Dimensional Structures Of A
Humanized And A Chimeric Fab Of An Anti-Gamma-Interferon
Antibody
Length = 220
Score = 25.8 bits (55), Expect = 7.7
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYYQDKKGFLSY 263
T+D SS A L SL D +VYY +GFL +
Sbjct: 71 TVDKSSSTAYIQLNSLTSEDSAVYY-CARGFLPW 103
>pdb|1OPG|H Chain H, Opg2 Fab Fragment
pdb|1BM3|H Chain H, Immunoglobulin Opg2 Fab-Peptide Complex
Length = 227
Score = 25.8 bits (55), Expect = 7.7
Identities = 11/35 (31%), Positives = 17/35 (48%)
Query: 232 DNISSNAQTHLLSLKKHDCSVYYQDKKGFLSYSMG 266
DN +N + SL+ D ++YY + F Y G
Sbjct: 73 DNAKNNLYLQMSSLRSEDTALYYCTRHPFYRYDGG 107
>pdb|1IGJ|B Chain B, Fab (Igg2a,Kappa) Fragment (26-10) Complex With Digoxin
pdb|1IGJ|D Chain D, Fab (Igg2a,Kappa) Fragment (26-10) Complex With Digoxin
pdb|1IGI|H Chain H, Fab (Igg2a,Kappa) Fragment (26-10)
Length = 218
Score = 25.8 bits (55), Expect = 7.7
Identities = 19/55 (34%), Positives = 23/55 (41%), Gaps = 4/55 (7%)
Query: 230 TMDNISSNAQTHLLSLKKHDCSVYY----QDKKGFLSYSMGGISVLANLFLTQNP 280
T+D SS A L SL D +VYY K + Y G SV + T P
Sbjct: 71 TVDKSSSTAYMELRSLTSEDSAVYYCAGSSGNKWAMDYWGHGASVTVSSAKTTAP 125
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
0.320 0.137 0.405
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,092,224
Number of Sequences: 13198
Number of extensions: 87550
Number of successful extensions: 260
Number of sequences better than 10.0: 23
Number of HSP's better than 10.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 245
Number of HSP's gapped (non-prelim): 23
length of query: 348
length of database: 2,899,336
effective HSP length: 89
effective length of query: 259
effective length of database: 1,724,714
effective search space: 446700926
effective search space used: 446700926
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)