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= psy10095
(680 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1ZR9|A Chain A, Solution Structure Of A Human C2h2-Type Zinc Finger
Protein
Length = 124
Score = 87.4 bits (215), Expect = 2e-17, Method: Composition-based stats.
Identities = 48/111 (43%), Positives = 66/111 (59%), Gaps = 3/111 (2%)
Query: 19 KTKLYKRDLDQIDGDCKEENAEKLL---HQEIDFDKPGEAQFYCLHCARHFIDEHALKEH 75
K K + DLD+I + + + + + + E D D PG CL CAR+FID LK H
Sbjct: 10 KAKRRRPDLDEIHRELRPQGSARPQPDPNAEFDPDLPGGGLHRCLACARYFIDSTNLKTH 69
Query: 76 FRTKVHKRRLKALEVEPYTVEESERAAGYGSYQTPKIRKLQTQSLDKTAEI 126
FR+K HK+RLK L VEPY+ EE+ERAAG GSY P+ + T+ + E+
Sbjct: 70 FRSKDHKKRLKQLSVEPYSQEEAERAAGMGSYVPPRRLAVPTEVSTEVPEM 120
Score = 32.7 bits (73), Expect = 0.72, Method: Composition-based stats.
Identities = 14/28 (50%), Positives = 20/28 (71%)
Query: 636 KPYTVEESERAAGYGSYQTPKIRKLQTQ 663
+PY+ EE+ERAAG GSY P+ + T+
Sbjct: 85 EPYSQEEAERAAGMGSYVPPRRLAVPTE 112
>pdb|1WLE|A Chain A, Crystal Structure Of Mammalian Mitochondrial Seryl-Trna
Synthetase Complexed With Seryl-Adenylate
pdb|1WLE|B Chain B, Crystal Structure Of Mammalian Mitochondrial Seryl-Trna
Synthetase Complexed With Seryl-Adenylate
Length = 501
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 46/209 (22%), Positives = 84/209 (40%), Gaps = 32/209 (15%)
Query: 328 VKHNFMPFTNTDLCKGVIVEGYGDHYLSPHDNMVLVNNENDLSEIGYEERRNHLVGSAHM 387
+ F P T DL +GV+ EG G ++P+ + N + +E+ +L G+A +
Sbjct: 234 IHRGFTPMTVPDLLRGVVFEGCG---MTPNAKPSQIYN---IDPSRFEDL--NLAGTAEV 285
Query: 388 SMFCAYHTNHSVNVKDLPVKYVTSGKQYGFHNLLCENTLKTSKHSRVENLYNSIQREKVN 447
+ Y +HSV +DLP++ V S Y +T LY KV
Sbjct: 286 GL-AGYFMDHSVAFRDLPIRMVCSSTCY---------RAETDTGKEPWGLYRVHHFTKVE 335
Query: 448 LF----VGTNNHENLCKEFQNIQSLLKSVMDKLNMKYRICKAPADVLHTSESHRLEYQVY 503
+F G L +EF ++Q ++ +L + +R+ P L + + + +
Sbjct: 336 MFGVTGPGLEQSSELLEEFLSLQ---MEILTELGLHFRVLDMPTQELGLPAYRKFDIEAW 392
Query: 504 SYS------LNSWVTCMDLNAKVYIQIVF 526
+ S C D ++ + I+F
Sbjct: 393 MPGRGRFGEVTSASNCTDFQSR-RLHIMF 420
>pdb|1XYZ|A Chain A, A Common Protein Fold And Similar Active Site In Two
Distinct Families Of Beta-Glycanases
pdb|1XYZ|B Chain B, A Common Protein Fold And Similar Active Site In Two
Distinct Families Of Beta-Glycanases
Length = 347
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 46/208 (22%), Positives = 80/208 (38%), Gaps = 26/208 (12%)
Query: 103 GYGSYQTPKIRKLQTQSLDKTAEIQPVREYCSALFITNDKLSQLCSNVSPSYDVKHVLEN 162
G G QTP TQ+ T +R+Y A I K+ C N P Y+ N
Sbjct: 2 GQGDVQTPNPSVTPTQTPIPTISGNALRDYAEARGI---KIGT-CVNY-PFYN------N 50
Query: 163 EDLIVNQLKQRRIDIS------EFDFTQMREKYKEFVGVEKITTELEHKLVDLEQYLLVN 216
D N + QR + +FD Q R+ +F +++ E + + + L+
Sbjct: 51 SDPTYNSILQREFSMVVCENEMKFDALQPRQNVFDFSKGDQLLAFAERNGMQMRGHTLIW 110
Query: 217 KSKLEPSQLEKKYLERKQLKAEIKKFDSFMLDYQRNVIIKVLKLPNYLDNSTPEVYETIY 276
++ PS L R L A +K + ++ + + I++ +D+S + +I+
Sbjct: 111 HNQ-NPSWLTNGNWNRDSLLAVMKNHITTVMTHYKGKIVEWDVANECMDDSGNGLRSSIW 169
Query: 277 EYDPDREGKNKIDMDALSKYVQYTNRLD 304
+N I D L +Y D
Sbjct: 170 --------RNVIGQDYLDYAFRYAREAD 189
>pdb|2DF4|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Mn2+
pdb|2DQN|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Asn
pdb|2G5H|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
pdb|2G5I|A Chain A, Structure Of Trna-dependent Amidotransferase Gatcab
Complexed With Adp-alf4
pdb|3IP4|A Chain A, The High Resolution Structure Of Gatcab
pdb|2F2A|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Gln
Length = 485
Score = 29.6 bits (65), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 39/80 (48%), Gaps = 8/80 (10%)
Query: 412 GKQYGFHNLLCENTLKTSKHSRVENLYNSIQREKVNLFVGT-----NNHENLCKEFQNIQ 466
G +YG+H+ + + K SR E ++R +F+GT ++ K+ Q ++
Sbjct: 326 GIRYGYHSKEAHSLEELYKMSRSEGFGKEVKRR---IFLGTFALSSGYYDAYYKKSQKVR 382
Query: 467 SLLKSVMDKLNMKYRICKAP 486
+L+K+ DK+ Y + P
Sbjct: 383 TLIKNDFDKVFENYDVVVGP 402
>pdb|2LVR|A Chain A, Solution Structure Of Miz-1 Zinc Finger 8
Length = 30
Score = 29.6 bits (65), Expect = 6.5, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 57 FYCLHCARHFIDEHALKEHFR 77
+ C+HC R F D AL+ H R
Sbjct: 4 YVCIHCQRQFADPGALQRHVR 24
>pdb|1SG3|A Chain A, Structure Of Allantoicase
pdb|1SG3|B Chain B, Structure Of Allantoicase
Length = 349
Score = 29.3 bits (64), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 340 LCKGVIVEGYGDHYLSPHDNMVLVNNENDLSEIGYEERRNHLVG 383
+C G + Y D + DN++L +D+S+ G+E +R+ G
Sbjct: 201 VCNGAVALKYSDQHFGSVDNLLLPGRGHDMSD-GWETKRSRQPG 243
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 0.133 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,211,273
Number of Sequences: 62578
Number of extensions: 852290
Number of successful extensions: 2520
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 2515
Number of HSP's gapped (non-prelim): 27
length of query: 680
length of database: 14,973,337
effective HSP length: 105
effective length of query: 575
effective length of database: 8,402,647
effective search space: 4831522025
effective search space used: 4831522025
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: 55 (25.8 bits)