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= 044599
(542 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NPE|A Chain A, Structure Of Vp14 In Complex With Oxygen
Length = 529
Score = 319 bits (817), Expect = 3e-87, Method: Compositional matrix adjust.
Identities = 185/511 (36%), Positives = 272/511 (53%), Gaps = 48/511 (9%)
Query: 67 DDIINNFIDPP--LKYSVDPRHVLSDNFAPVDELPPTECEVVQGSLPSCLDGAYIRNGPN 124
+ + N ++ P L + DP ++ NFAPV E PP V G +P +DG Y RNG N
Sbjct: 25 EGFVANVLERPHGLPSTADPAVQIAGNFAPVGERPPVHELPVSGRIPPFIDGVYARNGAN 84
Query: 125 PQYLPRGPYHLFDGDGMLHSIKISRGRA-TLCSRYVRTYKYTIENEAGSPILPNVFSGFN 183
P + P +HLFDGDGM+H+++I G A + R+ T + E G P+ P +
Sbjct: 85 PCFDPVAGHHLFDGDGMVHALRIRNGAAESYACRFTETARLRQERAIGRPVFPKAIGELH 144
Query: 184 XXXXXXXXXX----------------------------XXXXXXXXDLPYAIRLTPNGDI 215
DLPY +R+ +GD+
Sbjct: 145 GHSGIARLALFYARAACGLVDPSAGTGVANAGLVYFNGRLLAMSEDDLPYHVRVADDGDL 204
Query: 216 ETIGRHDFDGKLAMSMTAHPKLDSDTGEAFAFRYGPVP-PFLTYFRFDANGKKQPNVPIF 274
ET+GR+DFDG+L +M AHPKLD TGE A Y + P+L YF F +G K +V I
Sbjct: 205 ETVGRYDFDGQLGCAMIAHPKLDPATGELHALSYDVIKRPYLKYFYFRPDGTKSDDVEI- 263
Query: 275 SMTRPSFLHDFAITKKYAVFVDIQIGMNPMEMIFGGGSPVGADPAKVCRIGIIPRYATDE 334
+ +P+ +HDFAIT+ V D Q+ EM+ GGSPV D AK R G++P++A D
Sbjct: 264 PLEQPTMIHDFAITENLVVVPDHQVVFKLQEML-RGGSPVVLDAAKTSRFGVLPKHAADA 322
Query: 335 SQMRWFEVPGFNIIHAINAWDEEDGNAVVMVAPNILSVEHTLDRTD-LVHALVEKVRIDL 393
S+M W +VP H NAW++E VV++ + + + +D + +++ ++R+D
Sbjct: 323 SEMAWVDVPDCFCFHLWNAWEDEATGEVVVIGSCMTPADSIFNESDERLESVLTEIRLDA 382
Query: 394 RTGIVTRR----PMSARNLDFGVINPAYMAKKSRYVYAAVGDPMPKISGVVKLDVSKGDE 449
RTG TRR P NL+ G++N + +++RY Y AV +P PK+SG K+D+S G+
Sbjct: 383 RTGRSTRRAVLPPSQQVNLEVGMVNRNLLGRETRYAYLAVAEPWPKVSGFAKVDLSTGE- 441
Query: 450 RRDCIVATRIFGPGCYGGEPFFVARDPENPETE-EDDGYVVSYVHDENTGESKFLVMDAK 508
+ +G G +GGEP FV DP EDDGYV+++VHDE G S+ LV++A
Sbjct: 442 -----LTKFEYGEGRFGGEPCFVPMDPAAAHPRGEDDGYVLTFVHDERAGTSELLVVNAA 496
Query: 509 SPRLDIVAAVKLPRRVPYGFHGLFVRQADLD 539
RL+ A V+LP RVP+GFHG F+ +L+
Sbjct: 497 DMRLE--ATVQLPSRVPFGFHGTFITGQELE 525
>pdb|2BIW|A Chain A, Crystal Structure Of Apocarotenoid Cleavage Oxygenase From
Synechocystis, Native Enzyme
pdb|2BIW|B Chain B, Crystal Structure Of Apocarotenoid Cleavage Oxygenase From
Synechocystis, Native Enzyme
pdb|2BIW|C Chain C, Crystal Structure Of Apocarotenoid Cleavage Oxygenase From
Synechocystis, Native Enzyme
pdb|2BIW|D Chain D, Crystal Structure Of Apocarotenoid Cleavage Oxygenase From
Synechocystis, Native Enzyme
pdb|2BIX|A Chain A, Crystal Structure Of Apocarotenoid Cleavage Oxygenase From
Synechocystis, Fe-Free Apoenzyme
pdb|2BIX|B Chain B, Crystal Structure Of Apocarotenoid Cleavage Oxygenase From
Synechocystis, Fe-Free Apoenzyme
Length = 490
Score = 130 bits (327), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 130/477 (27%), Positives = 203/477 (42%), Gaps = 69/477 (14%)
Query: 104 EVVQGSLPSCLDGAYIRNGPNPQYLPRGPY-HLFDGDGMLHSIKI-SRGRATLCSRYVRT 161
E V+GS+P L G RNGP + P H FDGDGM+ + K GR S++VRT
Sbjct: 36 EDVEGSIPPDLQGTLYRNGPGLLEIGDRPLKHPFDGDGMVTAFKFPGDGRVHFQSKFVRT 95
Query: 162 YKYTIENEAGSPILPNVFS-----GF--NXXXXXXXXXXXXXXXXXXDLPYAI------- 207
Y E +AG I VF G+ D A+
Sbjct: 96 QGYVEEQKAGKMIYRGVFGSQPAGGWLKTIFDLRLKNIANTNITYWGDRLLALWEGGQPH 155
Query: 208 RLTPNGDIETIGRHDFDGKLA--MSMTAHPKLDSDTGEAFAFRYGPVPPFLTY------- 258
RL P+ ++ TIG D G LA ++AHP++D A F G P ++T+
Sbjct: 156 RLEPS-NLATIGLDDLGGILAEGQPLSAHPRIDP----ASTFD-GGQPCYVTFSIKSSLS 209
Query: 259 -----FRFDANGK----KQPNVPIFSMTRPSFLHDFAITKKYAVFVDIQIGMNPMEMIFG 309
D GK K P F+ F+HDFAIT YA+F+ + +N + +FG
Sbjct: 210 STLTLLELDPQGKLLRQKTETFPGFA-----FIHDFAITPHYAIFLQNNVTLNGLPYLFG 264
Query: 310 ---GGSPVGADPAKVCRIGIIPRYATDESQMRWFEVPGFNIIHAINAWDEEDGNAVVMVA 366
G V P K +I ++PR D +++ V + H NA++E + +
Sbjct: 265 LRGAGECVQFHPDKPAQIILVPR---DGGEIKRIPVQAGFVFHHANAFEENGKIILDSIC 321
Query: 367 PNILSVEHT------LDRTDLVHALVEKVRIDLRTGIVTRRPMSARNLDFGVINPAYMAK 420
N L T + +L + + ID V ++ M +R +F V++P + +
Sbjct: 322 YNSLPQVDTDGDFRSTNFDNLDPGQLWRFTIDPAAATVEKQLMVSRCCEFPVVHPQQVGR 381
Query: 421 KSRYVYAAVGDPMPK---ISGVVKLDVSKGDERRDCIVATRIFGPGCYGGEPFFVARDPE 477
RYVY + ++K+D+ G E R F P + GEP FV P
Sbjct: 382 PYRYVYMGAAHHSTGNAPLQAILKVDLESGTE------TLRSFAPHGFAGEPIFV---PR 432
Query: 478 NPETEEDDGYVVSYVHDENTGESKFLVMDAKSPRLDIVAAVKLPRRVPYGFHGLFVR 534
EDDG+++ ++ + S+ +++DA+ +A +KL +PY HG + +
Sbjct: 433 PGGVAEDDGWLLCLIYKADLHRSELVILDAQDITAPAIATLKLKHHIPYPLHGSWAQ 489
>pdb|3FSN|A Chain A, Crystal Structure Of Rpe65 At 2.14 Angstrom Resolution
pdb|3FSN|B Chain B, Crystal Structure Of Rpe65 At 2.14 Angstrom Resolution
pdb|3KVC|A Chain A, Crystal Structure Of Bovine Rpe65 At 1.9 Angstrom
Resolution
pdb|3KVC|B Chain B, Crystal Structure Of Bovine Rpe65 At 1.9 Angstrom
Resolution
pdb|4F2Z|A Chain A, Crystal Structure Of Rpe65 In A Lipid Environment
pdb|4F2Z|E Chain E, Crystal Structure Of Rpe65 In A Lipid Environment
pdb|4F30|A Chain A, Structure Of Rpe65: P6522 Crystal Form Grown In Ammonium
Phosphate Solution
pdb|4F3A|A Chain A, Structure Of Rpe65: P6522 Crystal Form, Iridium Derivative
pdb|4F3D|A Chain A, Structure Of Rpe65: P65 Crystal Form Grown In
Fos-Choline-10
pdb|4F3D|B Chain B, Structure Of Rpe65: P65 Crystal Form Grown In
Fos-Choline-10
Length = 533
Score = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 128/547 (23%), Positives = 202/547 (36%), Gaps = 132/547 (24%)
Query: 92 FAPVDELPPTECEVVQGSLPSCLDGAYIRNGPNPQYLPRGP-YHLFDGDGMLHSIKISRG 150
F V+EL V G +P L G+ +R GP + P YHLFDG +LH G
Sbjct: 16 FETVEELSSPLTAHVTGRIPLWLTGSLLRCGPGLFEVGSEPFYHLFDGQALLHKFDFKEG 75
Query: 151 RATLCSRYVRTYKYT--------IENEAGSPILP----NVFSGFNXXXXXXXXXXXXXXX 198
T R++RT Y + E G+ P N+FS F
Sbjct: 76 HVTYHRRFIRTDAYVRAMTEKRIVITEFGTCAFPDPCKNIFSRFFSYFRGVEVTDNALVN 135
Query: 199 ---------XXXDLPYAIRLTPNGDIETIGRHDFDGKLAMS-MTAHPKLDSDT------- 241
+ + ++ P +ETI + D ++++ TAHP +++D
Sbjct: 136 IYPVGEDYYACTETNFITKVNPE-TLETIKQVDLCNYVSVNGATAHPHIENDGTVYNIGN 194
Query: 242 --GEAFAFRYG--PVPPFLTYFRFDANGKKQPNV--PIFSMTRPSFLHDFAITKKYAVFV 295
G+ F+ Y +PP L + D K + V P +PS++H F +T Y VFV
Sbjct: 195 CFGKNFSIAYNIVKIPP-LQADKEDPISKSEIVVQFPCSDRFKPSYVHSFGLTPNYIVFV 253
Query: 296 DIQIGMNPMEMIFGGGSPVGADPAKVCRIGIIPRYATDESQMRWFEVPG----------- 344
+ + +N + + S GA+ + + ++E+ W +
Sbjct: 254 ETPVKINLFKFL-SSWSLWGAN--------YMDCFESNETMGVWLHIADKKRKKYINNKY 304
Query: 345 ----FNIIHAINA--------------------------------WDEEDGNAVVMVAPN 368
FN+ H IN W+E NA P
Sbjct: 305 RTSPFNLFHHINTYEDHEFLIVDLCCWKGFEFVYNYLYLANLRENWEEVKKNARKAPQPE 364
Query: 369 I------LSVEH--------TLDRTDLVHALVEKVRIDLRTGIVTRRPMSARNLDFGVIN 414
+ L+++ TL T L I L ++ P A +F IN
Sbjct: 365 VRRYVLPLNIDKADTGKNLVTLPNTTATAILCSDETIWLEPEVLFSGPRQA--FEFPQIN 422
Query: 415 -PAYMAKKSRYVYA-AVGDPMPKISGVVKLDVSKGDERRDCIVATRIFG-PGCYGGEPFF 471
Y K Y Y + +P + KL+V + T ++ P Y EP F
Sbjct: 423 YQKYGGKPYTYAYGLGLNHFVP--DRLCKLNVKTKE--------TWVWQEPDSYPSEPIF 472
Query: 472 VARDPENPET-EEDDGYVVSYVHDENTGE--SKFLVMDAKSPRLDIVAAVKLPRRVPYGF 528
V+ +P+ EEDDG V+S V G+ + L+++AK L VA ++ +P F
Sbjct: 473 VS----HPDALEEDDGVVLSVVVSPGAGQKPAYLLILNAKD--LSEVARAEVEINIPVTF 526
Query: 529 HGLFVRQ 535
HGLF +
Sbjct: 527 HGLFKKS 533
>pdb|3V9H|A Chain A, Crystal Structure Of Human 1-Pyrroline-5-Carboxylate
Dehydrogenase Mutant S352a
pdb|3V9H|B Chain B, Crystal Structure Of Human 1-Pyrroline-5-Carboxylate
Dehydrogenase Mutant S352a
pdb|3V9H|C Chain C, Crystal Structure Of Human 1-Pyrroline-5-Carboxylate
Dehydrogenase Mutant S352a
pdb|3V9H|D Chain D, Crystal Structure Of Human 1-Pyrroline-5-Carboxylate
Dehydrogenase Mutant S352a
Length = 566
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 48 YLPKKRAEPTIPTIILNACDDIINNFIDPPLKYSVDPRH--VLSDNFAPV 95
+L R+ P++ + CDD + F++P + S DP+ + + F PV
Sbjct: 406 WLEHARSSPSLTILAGGKCDDSVGYFVEPCIVESKDPQEPIMKEEIFGPV 455
>pdb|3V9G|A Chain A, Crystal Structure Of Human 1-Pyrroline-5-Carboxylate
Dehydrogenase
pdb|3V9G|B Chain B, Crystal Structure Of Human 1-Pyrroline-5-Carboxylate
Dehydrogenase
pdb|3V9G|C Chain C, Crystal Structure Of Human 1-Pyrroline-5-Carboxylate
Dehydrogenase
pdb|3V9G|D Chain D, Crystal Structure Of Human 1-Pyrroline-5-Carboxylate
Dehydrogenase
Length = 566
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 48 YLPKKRAEPTIPTIILNACDDIINNFIDPPLKYSVDPRH--VLSDNFAPV 95
+L R+ P++ + CDD + F++P + S DP+ + + F PV
Sbjct: 406 WLEHARSSPSLTILAGGKCDDSVGYFVEPCIVESKDPQEPIMKEEIFGPV 455
>pdb|3V9I|A Chain A, Crystal Structure Of Human 1-Pyrroline-5-Carboxylate
Dehydrogenase Mutant S352l
pdb|3V9I|B Chain B, Crystal Structure Of Human 1-Pyrroline-5-Carboxylate
Dehydrogenase Mutant S352l
pdb|3V9I|C Chain C, Crystal Structure Of Human 1-Pyrroline-5-Carboxylate
Dehydrogenase Mutant S352l
pdb|3V9I|D Chain D, Crystal Structure Of Human 1-Pyrroline-5-Carboxylate
Dehydrogenase Mutant S352l
Length = 566
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 26/50 (52%), Gaps = 2/50 (4%)
Query: 48 YLPKKRAEPTIPTIILNACDDIINNFIDPPLKYSVDPRH--VLSDNFAPV 95
+L R+ P++ + CDD + F++P + S DP+ + + F PV
Sbjct: 406 WLEHARSSPSLTILAGGKCDDSVGYFVEPCIVESKDPQEPIMKEEIFGPV 455
>pdb|1QNI|A Chain A, Crystal Structure Of Nitrous Oxide Reductase From
Pseudomonas Nautica, At 2.4a Resolution
pdb|1QNI|B Chain B, Crystal Structure Of Nitrous Oxide Reductase From
Pseudomonas Nautica, At 2.4a Resolution
pdb|1QNI|C Chain C, Crystal Structure Of Nitrous Oxide Reductase From
Pseudomonas Nautica, At 2.4a Resolution
pdb|1QNI|D Chain D, Crystal Structure Of Nitrous Oxide Reductase From
Pseudomonas Nautica, At 2.4a Resolution
pdb|1QNI|E Chain E, Crystal Structure Of Nitrous Oxide Reductase From
Pseudomonas Nautica, At 2.4a Resolution
pdb|1QNI|F Chain F, Crystal Structure Of Nitrous Oxide Reductase From
Pseudomonas Nautica, At 2.4a Resolution
Length = 581
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 35/78 (44%), Gaps = 11/78 (14%)
Query: 242 GEAFAFRYGPVP---------PFLTYFRFDANGKKQPNVPIFSMTRPSFLHDFAITKKYA 292
GE+ RY PVP P YF ANGK P V + ++ + L + I +
Sbjct: 255 GESEFTRYIPVPKNPHGLNTSPDGKYFI--ANGKLSPTVSVIAIDKLDDLFEDKIELRDT 312
Query: 293 VFVDIQIGMNPMEMIFGG 310
+ + ++G+ P+ F G
Sbjct: 313 IVAEPELGLGPLHTTFDG 330
>pdb|3IJE|A Chain A, Crystal Structure Of The Complete Integrin Alhavbeta3
Ectodomain Plus An Alpha/beta Transmembrane Fragment
Length = 967
Score = 29.6 bits (65), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 15/27 (55%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 477 ENPETEEDDGYVVSYVHD-ENTGESKF 502
ENPETEED G VV ++++ N G S F
Sbjct: 764 ENPETEEDVGPVVQHIYELRNNGPSSF 790
>pdb|4G1M|A Chain A, Re-Refinement Of Alpha V Beta 3 Structure
Length = 959
Score = 29.6 bits (65), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/27 (55%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 477 ENPETEEDDGYVVSYVHD-ENTGESKF 502
ENPETEED G VV ++++ N G S F
Sbjct: 764 ENPETEEDVGPVVQHIYELRNNGPSSF 790
>pdb|1JV2|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Alphavbeta3
pdb|1L5G|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Avb3 In Complex With An Arg-Gly-Asp Ligand
pdb|1M1X|A Chain A, Crystal Structure Of The Extracellular Segment Of Integrin
Alpha Vbeta3 Bound To Mn2+
pdb|1U8C|A Chain A, A Novel Adaptation Of The Integrin Psi Domain Revealed
From Its Crystal Structure
Length = 957
Score = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 15/27 (55%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 477 ENPETEEDDGYVVSYVHD-ENTGESKF 502
ENPETEED G VV ++++ N G S F
Sbjct: 764 ENPETEEDVGPVVQHIYELRNNGPSSF 790
>pdb|4G1E|A Chain A, Crystal Structure Of Integrin Alpha V Beta 3 With
Coil-Coiled Tag
Length = 998
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/27 (55%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 477 ENPETEEDDGYVVSYVHD-ENTGESKF 502
ENPETEED G VV ++++ N G S F
Sbjct: 764 ENPETEEDVGPVVQHIYELRNNGPSSF 790
>pdb|3FDB|A Chain A, Crystal Structure Of A Putative Plp-Dependent
Beta-Cystathionase (Aecd, Dip1736) From Corynebacterium
Diphtheriae At 1.99 A Resolution
Length = 377
Score = 28.5 bits (62), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 32/77 (41%), Gaps = 11/77 (14%)
Query: 237 LDSDTGEAFAFRYG---------PVPPFL--TYFRFDANGKKQPNVPIFSMTRPSFLHDF 285
L T E +A RYG P+P + Y D Q V + + P F H
Sbjct: 63 LSQATAEFYADRYGYQARPEWIFPIPDVVRGLYIAIDHFTPAQSKVIVPTPAYPPFFHLL 122
Query: 286 AITKKYAVFVDIQIGMN 302
+ T++ +F+D G+N
Sbjct: 123 SATQREGIFIDATGGIN 139
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
0.320 0.140 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,768,680
Number of Sequences: 62578
Number of extensions: 750346
Number of successful extensions: 1275
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1248
Number of HSP's gapped (non-prelim): 20
length of query: 542
length of database: 14,973,337
effective HSP length: 104
effective length of query: 438
effective length of database: 8,465,225
effective search space: 3707768550
effective search space used: 3707768550
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: 54 (25.4 bits)