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= 013114
(449 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IGF|A Chain A, Crystal Structure Of The All4481 Protein From Nostoc Sp.
Pcc 7120, Northeast Structural Genomics Consortium
Target Nsr300
pdb|3IGF|B Chain B, Crystal Structure Of The All4481 Protein From Nostoc Sp.
Pcc 7120, Northeast Structural Genomics Consortium
Target Nsr300
Length = 374
Score = 116 bits (291), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 112/404 (27%), Positives = 177/404 (43%), Gaps = 47/404 (11%)
Query: 51 LITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLVLHSQDPTAEYILNCKIGNSPVVCNSNL 110
++TFLGK G +T A+ AA+ A G L+ +P +L + P NL
Sbjct: 4 ILTFLGKSGVARTKIAIAAAKLLASQG-KRVLLAGLAEPVLPLLLEQTLTPDPQQIAPNL 62
Query: 111 SAVRIETTKMFLEPLNW--LKQADARLNMTQXXXXXXXXXXXXXXPGMDSIFSAFALERL 168
V+ +++ + LE NW +K+ +A+ T PG DS A AL
Sbjct: 63 EVVQFQSS-VLLE-RNWEEVKKLEAQYLRT-PIIKEVYGQELVVLPGXDS---ALAL--- 113
Query: 169 VGFFGNFAQRNHQKEKFDVIVYDGISPEETLRMIGVSSKARLYLKYLRNVAEKTDLGRLT 228
N + K+D IVYDG TLR +G+ Y++ R + +DLG+
Sbjct: 114 -----NAIREYDASGKYDTIVYDGTGDAFTLRXLGLPESLSWYVRRFRQLFVNSDLGKTI 168
Query: 229 A--PSLLKLVDEALSISGRRPLLNGNTSAEIWDAMDRMLERGSSALAEPHKFGCFLVMNP 286
A P + L+ +++ + A+ + ++ L++G ALA+P + FLV
Sbjct: 169 AESPLIQPLISSFFNVN-----WTADNFAQPTNQVNNFLDKGKEALADPKRVAAFLVTTA 223
Query: 287 NNRTSVNSALRY-WGCTIQAGAQVAGAICTASPHLDEESAERVRKNXXXXXXXXXXXXXT 345
+ V ++RY WG Q G + G I +S + SAE +
Sbjct: 224 DPLEVV--SVRYLWGSAQQIGLTIGGVIQVSSQTEGDLSAEFTPLSVTVVPDVTKG---- 277
Query: 346 DSSLDWNTIMLNPAGKEARDLLSLQAKRSSSLMSSVKFDAAKKSVTLLMPGFDKSEIKLY 405
DW ++ D L +++ + D + V L +PGFDK ++KL
Sbjct: 278 ----DWQPLI---------DALPNFVEQAEQAPKPITIDTHNRQVRLFLPGFDKKQVKLT 324
Query: 406 QYRGGSELLVEAGDQRRVIHLPPQIQGK-VGGARFIERNLIVTM 448
QY G E+ VEAGDQRR I LPP + G+ + GA+F LI++
Sbjct: 325 QY--GPEVTVEAGDQRRNIFLPPALSGRPITGAKFQNNYLIISF 366
>pdb|3UG6|A Chain A, Crystal Structure Of Get3 From Methanocaldococcus
Jannaschii
pdb|3UG6|B Chain B, Crystal Structure Of Get3 From Methanocaldococcus
Jannaschii
pdb|3UG6|C Chain C, Crystal Structure Of Get3 From Methanocaldococcus
Jannaschii
pdb|3UG6|D Chain D, Crystal Structure Of Get3 From Methanocaldococcus
Jannaschii
pdb|3UG7|A Chain A, Crystal Structure Of Get3 From Methanocaldococcus
Jannaschii
pdb|3UG7|B Chain B, Crystal Structure Of Get3 From Methanocaldococcus
Jannaschii
pdb|3UG7|C Chain C, Crystal Structure Of Get3 From Methanocaldococcus
Jannaschii
pdb|3UG7|D Chain D, Crystal Structure Of Get3 From Methanocaldococcus
Jannaschii
Length = 349
Score = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 56/243 (23%), Positives = 91/243 (37%), Gaps = 30/243 (12%)
Query: 72 HYAMAGLSTCLVLHSQDP--TAEYILNCKIGNSP--VVCNSNLSAVRIETTKMFLEPLNW 127
+ A GL +V S DP + I + G+ P V NL V I+ K E
Sbjct: 49 YLAEKGLKVVIV--STDPAHSLRDIFEQEFGHEPTKVKGYDNLYVVEIDPQKAMEEYKEK 106
Query: 128 LKQADARLNMTQXXXXXXXXXXXXXXPGMDSIFSAFALERLVGFFGNFAQRNHQKEKFDV 187
LK A N PG D +AF + F + N FDV
Sbjct: 107 LK-AQIEENPFLGEMLEDQLEMAALSPGTDE-SAAFDV------FLKYMDSNE----FDV 154
Query: 188 IVYDGISPEETLRMIGVSSKARLYLKYLRNVAEKTDLGRLTAPSLLKLVDEALSISGRRP 247
+++D TLR +G+ Y+ L + R +K++ + L G+
Sbjct: 155 VIFDTAPTGHTLRFLGMPEVMDKYMTKLIKL-------RKQMSGFMKMMKKLLPFGGKDE 207
Query: 248 LLNGNTSAEIWDAMDRMLERGSSALAEPHKFGCFLVMNPNNRTSVNS-----ALRYWGCT 302
++ + E + M + R + L++P + LV+ P + + S AL+ +G
Sbjct: 208 DIDYDKMLEELEKMKERIVRARNILSDPERTAFRLVVIPEEMSILESERAMKALQKYGIP 267
Query: 303 IQA 305
I A
Sbjct: 268 IDA 270
>pdb|2J37|W Chain W, Model Of Mammalian Srp Bound To 80s Rncs
Length = 504
Score = 32.7 bits (73), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 20/33 (60%)
Query: 51 LITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLV 83
+I F+G GSGKTT+ A +Y G TCL+
Sbjct: 103 VIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLI 135
>pdb|1TZQ|A Chain A, Crystal Structure Of The Equinatoxin Ii 8-69 Double
Cysteine Mutant
Length = 175
Score = 31.6 bits (70), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 232 LLKLVDEALSISGRRPLLN-GNTSAEIWDAMDRMLERGSSALAEPHKF--GCFLVMN 285
+LK V EAL R+ + N S + W A++ G+S + PHK GC L+ N
Sbjct: 14 ILKTVLEALGNVKRKIAVGVDNESGKTWTALNTYFRSGTSDIVLPHKVPHGCALLYN 70
>pdb|3NDB|B Chain B, Crystal Structure Of A Signal Sequence Bound To The Signal
Recognition Particle
Length = 454
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%)
Query: 45 NDKSTTLITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLV 83
N K +I +G GSGKTT+A A++ GL L+
Sbjct: 95 NPKKQNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALI 133
>pdb|2V3C|C Chain C, Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna Complex
Of M. Jannaschii
pdb|2V3C|D Chain D, Crystal Structure Of The Srp54-Srp19-7s.S Srp Rna Complex
Of M. Jannaschii
Length = 432
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%)
Query: 45 NDKSTTLITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLV 83
N K +I +G GSGKTT+A A++ GL L+
Sbjct: 95 NPKKQNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALI 133
>pdb|1F48|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1IHU|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase In Complex With
Mg-Adp-Alf3
pdb|1II0|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II0|B Chain B, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II9|A Chain A, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
pdb|1II9|B Chain B, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
Length = 589
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 24/53 (45%), Gaps = 4/53 (7%)
Query: 51 LITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLVLHSQDPTAEY--ILNCKIGN 101
LI +GKGG GKTT A A A G L + DP A LN + N
Sbjct: 329 LIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLT--TSDPAAHLSMTLNGSLNN 379
>pdb|2NZL|A Chain A, Crystal Structure Of Human Hydroxyacid Oxidase 1
Length = 392
Score = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 39/75 (52%), Gaps = 9/75 (12%)
Query: 155 GMDSIFSAFALERLVGFFGNFAQRNHQKEKFDVIVYD----GISPEETL-RMIGVSSKAR 209
G ++++ L RL+ ++ Q H K +YD G + EETL I S+ +
Sbjct: 14 GTENLYFQSMLPRLI-CINDYEQ--HAKSVLPKSIYDYYRSGANDEETLADNIAAFSRWK 70
Query: 210 LYLKYLRNVAEKTDL 224
LY + LRNVAE TDL
Sbjct: 71 LYPRMLRNVAE-TDL 84
>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 = 29.3 bits (64), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 59 GSGKTTSAVFAAQHYAMAGLSTCLVLHS-QDPTAEYILNC 97
G+GK+T A A YA AG T +V + PT YI N
Sbjct: 93 GAGKSTIAANLAVAYAQAGYKTLIVDGDMRKPTQHYIFNL 132
>pdb|1Z83|A Chain A, Crystal Structure Of Human Ak1a In Complex With Ap5a
pdb|1Z83|B Chain B, Crystal Structure Of Human Ak1a In Complex With Ap5a
pdb|1Z83|C Chain C, Crystal Structure Of Human Ak1a In Complex With Ap5a
pdb|2C95|A Chain A, Structure Of Adenylate Kinase 1 In Complex With P1,P4-Di
(Adenosine)tetraphosphate
pdb|2C95|B Chain B, Structure Of Adenylate Kinase 1 In Complex With P1,P4-Di
(Adenosine)tetraphosphate
Length = 196
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 22/45 (48%)
Query: 43 DENDKSTTLITFLGKGGSGKTTSAVFAAQHYAMAGLSTCLVLHSQ 87
+E K T +I +G GSGK T Q Y LST +L S+
Sbjct: 3 EEKLKKTNIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTGDLLRSE 47
>pdb|2RDT|A Chain A, Crystal Structure Of Human Glycolate Oxidase (Go) In
Complex With Cdst
pdb|2RDU|A Chain A, Crystal Structure Of Human Glycolate Oxidase In Complex
With Glyoxylate
pdb|2RDW|A Chain A, Crystal Structure Of Human Glycolate Oxidase In Complex
With Sulfate
Length = 387
Score = 28.1 bits (61), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 27/51 (52%), Gaps = 6/51 (11%)
Query: 179 NHQKEKFDVIVYD----GISPEETL-RMIGVSSKARLYLKYLRNVAEKTDL 224
H K +YD G + EETL I S+ +LY + LRNVAE TDL
Sbjct: 30 QHAKSVLPKSIYDYYRSGANDEETLADNIAAFSRWKLYPRMLRNVAE-TDL 79
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
0.318 0.132 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,991,808
Number of Sequences: 62578
Number of extensions: 389987
Number of successful extensions: 908
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 886
Number of HSP's gapped (non-prelim): 21
length of query: 449
length of database: 14,973,337
effective HSP length: 102
effective length of query: 347
effective length of database: 8,590,381
effective search space: 2980862207
effective search space used: 2980862207
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)