BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
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.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy9977
(192 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KB1|A Chain A, Crystal Structure Of The Nucleotide-Binding Protein Af_226
In Complex With Adp From Archaeoglobus Fulgidus,
Northeast Structural Genomics Consortium Target Gr157
pdb|3KB1|B Chain B, Crystal Structure Of The Nucleotide-Binding Protein Af_226
In Complex With Adp From Archaeoglobus Fulgidus,
Northeast Structural Genomics Consortium Target Gr157
Length = 262
Score = 139 bits (351), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 70/165 (42%), Positives = 99/165 (60%), Gaps = 4/165 (2%)
Query: 27 LALGLKDKGFKVGILDIDLCGPSVPHLLNIENSDVHQCPEGWVPVYTDASQTLAVMSIGF 86
LA+ +G KVGILD D GPS+PHL +E V EG PV T + V SI F
Sbjct: 39 LAVHYAKQGKKVGILDADFLGPSIPHLFGLEKGKVAVSDEGLEPVLTQ-RLGIKVXSIQF 97
Query: 87 LLKNRDDAIIWRGPKKTAMIRQIINDVCWKDVDYLIIDTPPGTSDEHITVMECLREVQCD 146
LL R+ +IWRGP IR+ + V W ++DYL+ID PPGT D +TV + + + +
Sbjct: 98 LLPKRETPVIWRGPLIAGXIREFLGRVAWGELDYLLIDLPPGTGDAPLTVXQ---DAKPN 154
Query: 147 GAVLVTTPQAVSIEDVRKEITFCKKTNIKILGLIENMSGYTCPHC 191
GAV+V+TPQ ++ V K IT ++T +LG++EN + + CP+C
Sbjct: 155 GAVIVSTPQELTAAVVEKAITXAEQTKTAVLGIVENXAYFECPNC 199
>pdb|2PH1|A Chain A, Crystal Structure Of Nucleotide-Binding Protein Af2382
From Archaeoglobus Fulgidus, Northeast Structural
Genomics Target Gr165
Length = 262
Score = 128 bits (322), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 66/165 (40%), Positives = 95/165 (57%), Gaps = 4/165 (2%)
Query: 27 LALGLKDKGFKVGILDIDLCGPSVPHLLNIENSDVHQCPEGWVPVYTDASQTLAVMSIGF 86
LA+ +G KVGILD D GPS+P L + N+ + EG PV T + V S F
Sbjct: 39 LAVHYARQGKKVGILDADFLGPSIPILFGLRNARIAVSAEGLEPVLTQ-KYGIKVXSXQF 97
Query: 87 LLKNRDDAIIWRGPKKTAMIRQIINDVCWKDVDYLIIDTPPGTSDEHITVMECLREVQCD 146
LL + +IWRGP IR+ + V W ++D+L+ID PPGT D +TV + + +
Sbjct: 98 LLPKENTPVIWRGPLIAGXIREFLGRVAWGELDHLLIDLPPGTGDAPLTVXQ---DAKPT 154
Query: 147 GAVLVTTPQAVSIEDVRKEITFCKKTNIKILGLIENMSGYTCPHC 191
G V+V+TPQ ++ V K I ++TN +LGL+EN S + CP+C
Sbjct: 155 GVVVVSTPQELTAVIVEKAINXAEETNTSVLGLVENXSYFVCPNC 199
>pdb|3VX3|A Chain A, Crystal Structure Of [nife] Hydrogenase Maturation Protein
Hypb From Thermococcus Kodakarensis Kod1
pdb|3VX3|B Chain B, Crystal Structure Of [nife] Hydrogenase Maturation Protein
Hypb From Thermococcus Kodakarensis Kod1
Length = 248
Score = 86.3 bits (212), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 54/183 (29%), Positives = 93/183 (50%), Gaps = 8/183 (4%)
Query: 2 LDGVKHVIXXXXXXXXXXXXXXXXQLALGLKDKGFKVGILDIDLCGPSVPHLLNIENSDV 61
L+GVK +I LAL L +KG++VG+LD+D G S +L E +
Sbjct: 15 LEGVKRIIPVVSGKGGVGKSLVSTTLALVLAEKGYRVGLLDLDFHGASDHVILGFEPKEF 74
Query: 62 HQCPEGWVPVYTDASQTLAVMSIGFLLKNRDDAIIWRGPKKTAMIRQIINDVCWKDVDYL 121
+ G VP + M+I + ++R + RG + + + +++ W ++DYL
Sbjct: 75 PEEDRGVVP---PTVHGIKFMTIAYYTEDRPTPL--RGKEISDALIELLTITRWDELDYL 129
Query: 122 IIDTPPGTSDEHITVMECLREVQCDGAVLVTTPQAVSIEDVRKEITFCKKTNIKILGLIE 181
+ID PPG D+ + V+ L+ + ++V TP +S+ VRK I K+ K++G++E
Sbjct: 130 VIDMPPGLGDQLLDVLRFLKRGEF---LVVATPSKLSLNVVRKLIELLKEEGHKVIGVVE 186
Query: 182 NMS 184
NM
Sbjct: 187 NMK 189
>pdb|1G3Q|A Chain A, Crystal Structure Analysis Of Pyrococcus Furiosus Cell
Division Atpase Mind
pdb|1G3R|A Chain A, Crystal Structure Analysis Of Pyrococcus Furiosus Cell
Division Atpase Mind
Length = 237
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 43/165 (26%), Positives = 74/165 (44%), Gaps = 13/165 (7%)
Query: 26 QLALGLKDKGFKVGILDIDLCGPSVPHLLNIENSDV--HQCPEGWVPVYTDASQTLAVMS 83
L++ L D+G KV +D DL ++ +L +++ DV H G V DA +
Sbjct: 22 NLSVALGDRGRKVLAVDGDLTMANLSLVLGVDDPDVTLHDVLAGEANV-EDAIYMTQFDN 80
Query: 84 IGFLLKNRD-DAIIWRGPKKTAMIRQIINDVCWKDVDYLIIDTPPGTSDEHITVMECLRE 142
+ L D + ++ P+K + + + D D+++ID P G + ++ M E
Sbjct: 81 VYVLPGAVDWEHVLKADPRKLPEVIKSLKD----KFDFILIDCPAGLQLDAMSAMLSGEE 136
Query: 143 VQCDGAVLVTTPQAVSIEDVRKEITFCKKTNIKILGLIENMSGYT 187
A+LVT P+ + D K KK + ILG + N G +
Sbjct: 137 -----ALLVTNPEISCLTDTMKVGIVLKKAGLAILGFVLNRYGRS 176
>pdb|2VED|A Chain A, Crystal Structure Of The Chimerical Mutant Capabk55m
Protein
pdb|2VED|B Chain B, Crystal Structure Of The Chimerical Mutant Capabk55m
Protein
Length = 271
Score = 33.9 bits (76), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 36/163 (22%), Positives = 72/163 (44%), Gaps = 18/163 (11%)
Query: 26 QLALGLKDKGFKVGILDIDLCGPSVPHLLNIENSD-VHQCPEGWVPVYTDA-----SQTL 79
LA+ G+K I+D D+ P+ ++ N+ N++ + W Y D+ + L
Sbjct: 102 NLAVAYAQAGYKTLIVDGDMRKPTQHYIFNLPNNEGLSSLLLNW-STYQDSIISTEIEDL 160
Query: 80 AVMSIGFLLKNRDDAIIWRGPKKTAMIRQIINDVCWKDVDYLIIDTPPGTSDEHITVMEC 139
V++ G + N + I R + D + +++IIDTPP + +T +
Sbjct: 161 DVLTSGPIPPNPSELITSRAFAN-------LYDTLLMNYNFVIIDTPPVNT---VTDAQL 210
Query: 140 LREVQCDGAVLVTTPQAVSIEDVRKEITFCKKTNIKILGLIEN 182
+ + V V + + ++V+K + T K+LG++ N
Sbjct: 211 FSKFTGN-VVYVVNSENNNKDEVKKGKELIEATGAKLLGVVLN 252
>pdb|3BFV|A Chain A, Crystal Structure Of The Chimerical Protein Capab
pdb|3BFV|B Chain B, Crystal Structure Of The Chimerical Protein Capab
Length = 271
Score = 33.9 bits (76), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 36/163 (22%), Positives = 72/163 (44%), Gaps = 18/163 (11%)
Query: 26 QLALGLKDKGFKVGILDIDLCGPSVPHLLNIENSD-VHQCPEGWVPVYTDA-----SQTL 79
LA+ G+K I+D D+ P+ ++ N+ N++ + W Y D+ + L
Sbjct: 102 NLAVAYAQAGYKTLIVDGDMRKPTQHYIFNLPNNEGLSSLLLNW-STYQDSIISTEIEDL 160
Query: 80 AVMSIGFLLKNRDDAIIWRGPKKTAMIRQIINDVCWKDVDYLIIDTPPGTSDEHITVMEC 139
V++ G + N + I R + D + +++IIDTPP + +T +
Sbjct: 161 DVLTSGPIPPNPSELITSRAFAN-------LYDTLLMNYNFVIIDTPPVNT---VTDAQL 210
Query: 140 LREVQCDGAVLVTTPQAVSIEDVRKEITFCKKTNIKILGLIEN 182
+ + V V + + ++V+K + T K+LG++ N
Sbjct: 211 FSKFTGN-VVYVVNSENNNKDEVKKGKELIEATGAKLLGVVLN 252
>pdb|1JR1|A Chain A, Crystal Structure Of Inosine Monophosphate Dehydrogenase
In Complex With Mycophenolic Acid
pdb|1JR1|B Chain B, Crystal Structure Of Inosine Monophosphate Dehydrogenase
In Complex With Mycophenolic Acid
Length = 514
Score = 32.7 bits (73), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 27/123 (21%), Positives = 55/123 (44%), Gaps = 14/123 (11%)
Query: 54 LNIENSDVHQCPEGWVPVYTDASQTLAVMSIGFLLKNRDDAIIWRGPKKTAMIRQIIND- 112
L N + + +G +P+ + + +A+++ L KNRD + + KK + I
Sbjct: 194 LKEANEILQRSKKGKLPIVNENDELVAIIARTDLKKNRDYPLASKDAKKQLLCGAAIGTH 253
Query: 113 ---------VCWKDVDYLIIDTPPGTSDEHITVMECLRE----VQCDGAVLVTTPQAVSI 159
+ VD +++D+ G S I +++ ++E +Q G +VT QA ++
Sbjct: 254 EDDKYRLDLLALAGVDVVVLDSSQGNSIFQINMIKYMKEKYPNLQVIGGNVVTAAQAKNL 313
Query: 160 EDV 162
D
Sbjct: 314 IDA 316
>pdb|1ION|A Chain A, The Septum Site-Determining Protein Mind Complexed With
Mg-Adp From Pyrococcus Horikoshii Ot3
Length = 243
Score = 32.3 bits (72), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 41/165 (24%), Positives = 73/165 (44%), Gaps = 13/165 (7%)
Query: 26 QLALGLKDKGFKVGILDIDLCGPSVPHLLNIE--NSDVHQCPEGWVPVYTDASQTLAVMS 83
L++ L + G KV +D DL ++ +L ++ N +H G + DA +
Sbjct: 22 NLSVALGEXGRKVLAVDGDLTXANLSLVLGVDDVNITLHDVLAGDAKL-EDAIYXTQFEN 80
Query: 84 IGFLLKNRD-DAIIWRGPKKTAMIRQIINDVCWKDVDYLIIDTPPGTSDEHITVMECLRE 142
+ L D + +I P+K + ++I + K D+++ID P G + +
Sbjct: 81 VYILPGAVDWEHVIKADPRK---LPEVIKSLKGK-YDFILIDCPAG-----LQLRAXSAX 131
Query: 143 VQCDGAVLVTTPQAVSIEDVRKEITFCKKTNIKILGLIENMSGYT 187
+ + A+LVT P+ + D K KK + ILG I N G +
Sbjct: 132 LSGEEAILVTNPEISCLTDTXKVGXVLKKAGLAILGFILNRYGRS 176
>pdb|1B3O|A Chain A, Ternary Complex Of Human Type-Ii Inosine Monophosphate
Dehydrogenase With 6-Cl-Imp And Selenazole Adenine
Dinucleotide
pdb|1B3O|B Chain B, Ternary Complex Of Human Type-Ii Inosine Monophosphate
Dehydrogenase With 6-Cl-Imp And Selenazole Adenine
Dinucleotide
pdb|1NF7|A Chain A, Ternary Complex Of The Human Type Ii Inosine Monophosphate
Dedhydrogenase With Ribavirin Monophosphate And C2-
Mycophenolic Adenine Dinucleotide
pdb|1NF7|B Chain B, Ternary Complex Of The Human Type Ii Inosine Monophosphate
Dedhydrogenase With Ribavirin Monophosphate And C2-
Mycophenolic Adenine Dinucleotide
pdb|1NFB|A Chain A, Ternary Complex Of The Human Type Ii Inosine Monophosphate
Dedhydrogenase With 6cl-Imp And Nad
pdb|1NFB|B Chain B, Ternary Complex Of The Human Type Ii Inosine Monophosphate
Dedhydrogenase With 6cl-Imp And Nad
Length = 514
Score = 30.4 bits (67), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 26/123 (21%), Positives = 55/123 (44%), Gaps = 14/123 (11%)
Query: 54 LNIENSDVHQCPEGWVPVYTDASQTLAVMSIGFLLKNRDDAIIWRGPKKTAMIRQIIND- 112
L N + + +G +P+ + + +A+++ L KNRD + + KK + I
Sbjct: 194 LKEANEILQRSKKGKLPIVNEDDELVAIIARTDLKKNRDYPLASKDAKKQLLCGAAIGTH 253
Query: 113 ---------VCWKDVDYLIIDTPPGTSDEHITVMECLRE----VQCDGAVLVTTPQAVSI 159
+ VD +++D+ G S I +++ +++ +Q G +VT QA ++
Sbjct: 254 EDDKYRLDLLAQAGVDVVVLDSSQGNSIFQINMIKYIKDKYPNLQVIGGNVVTAAQAKNL 313
Query: 160 EDV 162
D
Sbjct: 314 IDA 316
>pdb|1JCN|A Chain A, Binary Complex Of Human Type-I Inosine Monophosphate
Dehydrogenase With 6-Cl-Imp
pdb|1JCN|B Chain B, Binary Complex Of Human Type-I Inosine Monophosphate
Dehydrogenase With 6-Cl-Imp
Length = 514
Score = 30.0 bits (66), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 25/123 (20%), Positives = 54/123 (43%), Gaps = 14/123 (11%)
Query: 54 LNIENSDVHQCPEGWVPVYTDASQTLAVMSIGFLLKNRDDAIIWRGPKKTAMIRQIIND- 112
L N + + +G +P+ D + +A+++ L KNRD + + +K + +
Sbjct: 194 LKEANEILQRSKKGKLPIVNDCDELVAIIARTDLKKNRDYPLASKDSQKQLLCGAAVGTR 253
Query: 113 ---------VCWKDVDYLIIDTPPGTSDEHITVMECLRE----VQCDGAVLVTTPQAVSI 159
+ VD +++D+ G S I ++ +++ +Q G +VT QA ++
Sbjct: 254 EDDKYRLDLLTQAGVDVIVLDSSQGNSVYQIAMVHYIKQKYPHLQVIGGNVVTAAQAKNL 313
Query: 160 EDV 162
D
Sbjct: 314 IDA 316
>pdb|4B3G|A Chain A, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
pdb|4B3G|B Chain B, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
Length = 646
Score = 30.0 bits (66), Expect = 0.90, Method: Composition-based stats.
Identities = 14/55 (25%), Positives = 28/55 (50%)
Query: 122 IIDTPPGTSDEHITVMECLREVQCDGAVLVTTPQAVSIEDVRKEITFCKKTNIKI 176
II PPGT V L+ V+ VL P ++++++ + + CK+ +++
Sbjct: 209 IIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPSNIAVDNLVERLALCKQRILRL 263
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 30.0 bits (66), Expect = 0.90, Method: Composition-based stats.
Identities = 14/55 (25%), Positives = 28/55 (50%)
Query: 122 IIDTPPGTSDEHITVMECLREVQCDGAVLVTTPQAVSIEDVRKEITFCKKTNIKI 176
II PPGT V L+ V+ VL P ++++++ + + CK+ +++
Sbjct: 209 IIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPSNIAVDNLVERLALCKQRILRL 263
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.140 0.441
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,435,756
Number of Sequences: 62578
Number of extensions: 208926
Number of successful extensions: 400
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 387
Number of HSP's gapped (non-prelim): 13
length of query: 192
length of database: 14,973,337
effective HSP length: 93
effective length of query: 99
effective length of database: 9,153,583
effective search space: 906204717
effective search space used: 906204717
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)