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= 006071
(662 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 38.1 bits (87), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 27/118 (22%), Positives = 52/118 (44%), Gaps = 12/118 (10%)
Query: 180 AIRFFEDMKSRGISLDVVTYNTMINGYNRFKKMDEAEK---------LFAEMKEKNIEPT 230
A+R +++ + G+ L YN ++ + + E+ +F +M + P
Sbjct: 45 ALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPN 104
Query: 231 VISYTTMIKGYVAVERADDALRIFDEMKSFDVKPNAVTYTALLPGLC---DAGKMVEV 285
++T + VA + + A + +MK+F ++P +Y L G C DA K EV
Sbjct: 105 EATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEV 162
Score = 33.1 bits (74), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 46/181 (25%), Positives = 74/181 (40%), Gaps = 17/181 (9%)
Query: 127 KSYDALFK----LILRRGRYMMAKRYFNKMLSEGIEPTRHTYNVMLWGFFLSLKLETAIR 182
+S +AL K + ++G + A R +++ G++ +++ YNV+L + SL
Sbjct: 23 QSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLL--YVCSLAEAATES 80
Query: 183 FFEDMKSRGISL------DVVTYN--TMINGYNRFKKMDEAEKLF---AEMKEKNIEPTV 231
SRG + D V N T NG D+ E F +MK I+P +
Sbjct: 81 SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRL 140
Query: 232 ISYTTMIKGYVAVERADDALRIFDEMKSFDVKPNAVTYTALLPGLCDAGKMVEVQKVLRE 291
SY + G+ AD A + M +V P ALL D +V K L+
Sbjct: 141 RSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQR 200
Query: 292 M 292
+
Sbjct: 201 L 201
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 42/193 (21%), Positives = 82/193 (42%), Gaps = 26/193 (13%)
Query: 84 KKGVQWD-EDMFEVLIESYGKKGIVQESVKIFDIMKQLGVERSVKSYDALFKLI------ 136
KK +Q E + + ++ KKG V E+++++D ++ GV+ S Y+ L +
Sbjct: 18 KKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAA 77
Query: 137 --------LRRGRYMMAKRYFNKMLSEGIEPTRHTYNVMLWGFFLSLK---LETAIRFFE 185
L RG + F +M+ + + P T+ G L++ E A +
Sbjct: 78 TESSPNPGLSRGFDI-----FKQMIVDKVVPNEATFTN---GARLAVAKDDPEMAFDMVK 129
Query: 186 DMKSRGISLDVVTYNTMINGYNRFKKMDEAEKLFAEMKEKNIEPTVISYTTMIKGYVAVE 245
MK+ GI + +Y + G+ R D+A ++ A M E + P ++K + +
Sbjct: 130 QMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTK 189
Query: 246 RADDALRIFDEMK 258
AD + ++
Sbjct: 190 NADKVYKTLQRLR 202
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 29/134 (21%), Positives = 63/134 (47%), Gaps = 7/134 (5%)
Query: 400 EIFFRQLMKKGVLDPVAFNNLIRGHSKEGNPDSAFEIVKIMGRRGVPRDADAYICLIESY 459
+IF + ++ K V + F N R + +P+ AF++VK M G+ +Y + +
Sbjct: 91 DIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGF 150
Query: 460 LRKGEPADAKTALDSMIEDGHSPA-----SSLFRSVMESLFEDGRVQTASRVMKSMVEKG 514
RKG+ AD +D+ + + ++L + M++ D +T R ++ +V +
Sbjct: 151 CRKGD-ADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQR-LRDLVRQV 208
Query: 515 VKENLDLVAKILEA 528
K D++ + ++
Sbjct: 209 SKSTFDMIEEWFKS 222
>pdb|4G23|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G25|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana, Semet Substituted Form With Sr
Length = 501
Score = 33.5 bits (75), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 25/118 (21%), Positives = 49/118 (41%), Gaps = 12/118 (10%)
Query: 180 AIRFFEDMKSRGISLDVVTYNTMINGYNRFKKMDEAEK---------LFAEMKEKNIEPT 230
A+R +++ + G+ L YN ++ + + E+ +F + + P
Sbjct: 45 ALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQXIVDKVVPN 104
Query: 231 VISYTTMIKGYVAVERADDALRIFDEMKSFDVKPNAVTYTALLPGLC---DAGKMVEV 285
++T + VA + + A + K+F ++P +Y L G C DA K EV
Sbjct: 105 EATFTNGARLAVAKDDPEXAFDXVKQXKAFGIQPRLRSYGPALFGFCRKGDADKAYEV 162
>pdb|3RIH|A Chain A, Crystal Structure Of A Putative Short Chain Dehydrogenase
Or Reductase From Mycobacterium Abscessus
pdb|3RIH|B Chain B, Crystal Structure Of A Putative Short Chain Dehydrogenase
Or Reductase From Mycobacterium Abscessus
pdb|3RIH|C Chain C, Crystal Structure Of A Putative Short Chain Dehydrogenase
Or Reductase From Mycobacterium Abscessus
pdb|3RIH|D Chain D, Crystal Structure Of A Putative Short Chain Dehydrogenase
Or Reductase From Mycobacterium Abscessus
Length = 293
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 30/67 (44%), Gaps = 7/67 (10%)
Query: 254 FDEMKSFDVKPNAVTYTALLPGLCDAGKMVEVQKVLREMVERYIPPKDNSVFMKLLGVQC 313
F + ++ P VT A+LPG + + L +M E YI S+ M +LG
Sbjct: 202 FMRTAAIELAPRGVTVNAILPGNI-------LTEGLVDMGEEYISGMARSIPMGMLGSPV 254
Query: 314 KSGHLNA 320
GHL A
Sbjct: 255 DIGHLAA 261
>pdb|3V0C|A Chain A, 4.3 Angstrom Crystal Structure Of An Inactive BontA
(E224qR363AY366F)
Length = 1312
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 44/103 (42%), Gaps = 15/103 (14%)
Query: 502 TASRVMKSMVEKGVKENLDLVAKILEALL---------MRGHVEEALGRI------DLMM 546
+ S +M SM+ GVK D A + +ALL + G V+ ++ D+
Sbjct: 792 SVSYLMNSMIPYGVKRLEDFDASLKDALLKYIYDNRGTLIGQVDRLKDKVNNTLSTDIPF 851
Query: 547 QSGSVPNFDSLLSVLSEKGKTIAAVKLLDFCLGRDCIIDLASY 589
Q + LLS +E K I +L+ + +IDL+ Y
Sbjct: 852 QLSKYVDNQRLLSTFTEYIKNIINTSILNLRYESNHLIDLSRY 894
>pdb|3BTA|A Chain A, Crystal Structure Of Botulinum Neurotoxin Serotype A
pdb|2NYY|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Cr1
pdb|2NZ9|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Ar2
pdb|2NZ9|B Chain B, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Ar2
Length = 1295
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 44/103 (42%), Gaps = 15/103 (14%)
Query: 502 TASRVMKSMVEKGVKENLDLVAKILEALL---------MRGHVEEALGRI------DLMM 546
+ S +M SM+ GVK D A + +ALL + G V+ ++ D+
Sbjct: 791 SVSYLMNSMIPYGVKRLEDFDASLKDALLKYIYDNRGTLIGQVDRLKDKVNNTLSTDIPF 850
Query: 547 QSGSVPNFDSLLSVLSEKGKTIAAVKLLDFCLGRDCIIDLASY 589
Q + LLS +E K I +L+ + +IDL+ Y
Sbjct: 851 QLSKYVDNQRLLSTFTEYIKNIINTSILNLRYESNHLIDLSRY 893
>pdb|3V0A|A Chain A, 2.7 Angstrom Crystal Structure Of BontAI IN COMPLEX WITH
NTNHA
pdb|3V0B|A Chain A, 3.9 Angstrom Crystal Structure Of BontAI IN COMPLEX WITH
NTNHA
Length = 1296
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 44/103 (42%), Gaps = 15/103 (14%)
Query: 502 TASRVMKSMVEKGVKENLDLVAKILEALL---------MRGHVEEALGRI------DLMM 546
+ S +M SM+ GVK D A + +ALL + G V+ ++ D+
Sbjct: 792 SVSYLMNSMIPYGVKRLEDFDASLKDALLKYIYDNRGTLIGQVDRLKDKVNNTLSTDIPF 851
Query: 547 QSGSVPNFDSLLSVLSEKGKTIAAVKLLDFCLGRDCIIDLASY 589
Q + LLS +E K I +L+ + +IDL+ Y
Sbjct: 852 QLSKYVDNQRLLSTFTEYIKNIINTSILNLRYESNHLIDLSRY 894
>pdb|1GWH|A Chain A, Atomic Resolution Structure Of Micrococcus Lysodeikticus
Catalase Complexed With Nadph
pdb|1GWE|A Chain A, Atomic Resolution Structure Of Micrococcus Lysodeikticus
Catalase
Length = 503
Score = 30.4 bits (67), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 16/51 (31%)
Query: 413 DPVAFNNLIRGHSK----------------EGNPDSAFEIVKIMGRRGVPR 447
DP+ F + IR + NP+SA ++ +MG RG+PR
Sbjct: 142 DPMKFTHFIRSQKRLPDSGLRDATMQWDFWTNNPESAHQVTYLMGPRGLPR 192
>pdb|1HBZ|A Chain A, Catalase From Micrococcus Lysodeikticu
Length = 498
Score = 30.4 bits (67), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 16/51 (31%)
Query: 413 DPVAFNNLIRGHSK----------------EGNPDSAFEIVKIMGRRGVPR 447
DP+ F + IR + NP+SA ++ +MG RG+PR
Sbjct: 137 DPMKFTHFIRSQKRLPDSGLRDATMQWDFWTNNPESAHQVTYLMGPRGLPR 187
>pdb|1KIT|A Chain A, Vibrio Cholerae Neuraminidase
Length = 757
Score = 30.0 bits (66), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 133 FKLILRRGRYMMAKRYFN-KMLSEGIEPTRHTYNVMLWG 170
F+L+ G A YF+ K++ + I+PT N+++WG
Sbjct: 132 FELVFLPGSNPSASFYFDGKLIRDNIQPTASKQNMIVWG 170
>pdb|3HRC|A Chain A, Crystal Structure Of A Mutant Of Human Pdk1 Kinase Domain
In Complex With Atp
pdb|3HRF|A Chain A, Crystal Structure Of Human Pdk1 Kinase Domain In Complex
With An Allosteric Activator Bound To The Pif-Pocket
pdb|3RCJ|A Chain A, Rapid Preparation Of Triazolyl Substituted Nh-Heterocyclic
Kinase Inhibitors Via One-Pot Sonogashira Coupling
Tms-Deprotection Cuaac Sequence
pdb|4A06|A Chain A, Human Pdk1 Kinase Domain In Complex With Allosteric
Activator Ps114 Bound To The Pif-Pocket
pdb|4AW1|A Chain A, Human Pdk1 Kinase Domain In Complex With Allosteric
Compound Ps210 Bound To The Pif-Pocket
Length = 311
Score = 30.0 bits (66), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 35/81 (43%), Gaps = 5/81 (6%)
Query: 313 CKSGHLNAAADVLKAMIRLSIPTEAGHYGILIENFCKAEMYDRAIKLLDK---LVEKEII 369
CKS L A ++ ++ P AG+ G++ K E YD K K LVEK ++
Sbjct: 212 CKSSDLWALGCIIYQLVAGLPPFRAGNEGLIFAKIIKLE-YDFPEKFFPKARDLVEKLLV 270
Query: 370 LRPQSTLDMEA-SSYNPMIQH 389
L L E Y P+ H
Sbjct: 271 LDATKRLGCEEMEGYGPLKAH 291
>pdb|1W0O|A Chain A, Vibrio Cholerae Sialidase
pdb|1W0P|A Chain A, Vibrio Cholerae Sialidase With Alpha-2,6-Sialyllactose
Length = 781
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 133 FKLILRRGRYMMAKRYFN-KMLSEGIEPTRHTYNVMLWG 170
F+L+ G A YF+ K++ + I+PT N+++WG
Sbjct: 156 FELVFLPGSNPSASFYFDGKLIRDNIQPTASKQNMIVWG 194
>pdb|3QYC|A Chain A, Structure Of A Dimeric Anti-Her2 Single Domain Antibody
pdb|3QYC|B Chain B, Structure Of A Dimeric Anti-Her2 Single Domain Antibody
Length = 146
Score = 29.6 bits (65), Expect = 6.1, Method: Composition-based stats.
Identities = 13/44 (29%), Positives = 20/44 (45%)
Query: 234 YTTMIKGYVAVERADDALRIFDEMKSFDVKPNAVTYTALLPGLC 277
Y +KG + R + ++ +M S + AV Y LP LC
Sbjct: 62 YADSVKGRFTISRDNSKNTVYLQMNSLRAEDTAVYYCVTLPDLC 105
>pdb|2FI7|A Chain A, Crystal Structure Of Pilf : Functional Implication In The
Type 4 Pilus Biogenesis In Pseudomonas Aeruginosa
pdb|2FI7|B Chain B, Crystal Structure Of Pilf : Functional Implication In The
Type 4 Pilus Biogenesis In Pseudomonas Aeruginosa
Length = 265
Score = 29.3 bits (64), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 6/54 (11%)
Query: 450 DAYICLIESYLRKGEPADAKTALDSMIE------DGHSPASSLFRSVMESLFED 497
DAYI L YL++G AK L +E D H+ + +F++ ME D
Sbjct: 51 DAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLAD 104
>pdb|2W68|A Chain A, Enhancing The Receptor Affinity Of The Sialic Acid-Binding
Domain Of Vibrio Cholerae Sialidase Through Multivalency
pdb|2W68|B Chain B, Enhancing The Receptor Affinity Of The Sialic Acid-Binding
Domain Of Vibrio Cholerae Sialidase Through Multivalency
pdb|2W68|C Chain C, Enhancing The Receptor Affinity Of The Sialic Acid-Binding
Domain Of Vibrio Cholerae Sialidase Through Multivalency
Length = 195
Score = 28.9 bits (63), Expect = 8.9, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 133 FKLILRRGRYMMAKRYFN-KMLSEGIEPTRHTYNVMLWG 170
F+L+ G A YF+ K++ + I+PT N+++WG
Sbjct: 135 FELVFLPGSNPSASFYFDGKLIRDNIQPTASKQNMIVWG 173
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
0.321 0.136 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,422,600
Number of Sequences: 62578
Number of extensions: 751997
Number of successful extensions: 2326
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 2293
Number of HSP's gapped (non-prelim): 38
length of query: 662
length of database: 14,973,337
effective HSP length: 105
effective length of query: 557
effective length of database: 8,402,647
effective search space: 4680274379
effective search space used: 4680274379
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)