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= 039121
(232 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1L9X|A Chain A, Structure Of Gamma-Glutamyl Hydrolase
pdb|1L9X|B Chain B, Structure Of Gamma-Glutamyl Hydrolase
pdb|1L9X|C Chain C, Structure Of Gamma-Glutamyl Hydrolase
pdb|1L9X|D Chain D, Structure Of Gamma-Glutamyl Hydrolase
Length = 315
Score = 89.4 bits (220), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 60/171 (35%), Positives = 90/171 (52%), Gaps = 13/171 (7%)
Query: 57 RPVIGILSHPGDGASGRLSNATNASYISASYVKFAESGGARVIPLIFNEPE---EILFEK 113
+P+IGIL ++ YI+ASYVK+ ES GARV+P+ + E EILF+
Sbjct: 30 KPIIGILMQK---CRNKVMKNYGRYYIAASYVKYLESAGARVVPVRLDLTEKDYEILFKS 86
Query: 114 LELVNGILYTGGWA--KSGLYYDIVEKIFKKILEKNDAGDHFPVYAICLGFELLSMIVSE 171
+NGIL+ GG + Y + + + ++ D GD+FPV+ CLGFE LS+++S
Sbjct: 87 ---INGILFPGGSVDLRRSDYAKVAKIFYNLSIQSFDDGDYFPVWGTCLGFEELSLLISG 143
Query: 172 DRNILETFDRANQASTLQFVKNINIEGTLFQRFPPELLKKLSTDCLVMQNH 222
+ +L D + A L F + +FQ FP ELL L+ + L H
Sbjct: 144 E-CLLTATDTVDVAMPLNFTGG-QLHSRMFQNFPTELLLSLAVEPLTANFH 192
>pdb|2ZW9|A Chain A, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZW9|B Chain B, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZWA|A Chain A, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZWA|B Chain B, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZZK|A Chain A, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
pdb|2ZZK|B Chain B, Crystal Structure Of Trna Wybutosine Synthesizing Enzyme
Tyw4
Length = 695
Score = 31.2 bits (69), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 27/102 (26%), Positives = 47/102 (46%), Gaps = 15/102 (14%)
Query: 120 ILYTGGWAK--SGLYYDIVEKIFKKILEKND--------AGDHF-PV--YAICLGFELLS 166
+L GG + + L Y++ E+IFK + K++ AG F PV I LG +
Sbjct: 503 VLILGGVTEGPAMLLYNVTEEIFKDVTPKDEFFQNSLVSAGLEFDPVSKQGIILGGGFMD 562
Query: 167 MIVSEDRNILETFDRANQASTLQFVKNINIEGTLFQRFPPEL 208
D+ I+ +D N + +K ++ LFQR+ ++
Sbjct: 563 QTTVSDKAIIFKYDAENATEPITVIK--KLQHPLFQRYGSQI 602
>pdb|3FIJ|A Chain A, Crystal Structure Of A Uncharacterized Protein Lin1909
pdb|3FIJ|B Chain B, Crystal Structure Of A Uncharacterized Protein Lin1909
pdb|3FIJ|C Chain C, Crystal Structure Of A Uncharacterized Protein Lin1909
pdb|3FIJ|D Chain D, Crystal Structure Of A Uncharacterized Protein Lin1909
pdb|3FIJ|E Chain E, Crystal Structure Of A Uncharacterized Protein Lin1909
pdb|3FIJ|F Chain F, Crystal Structure Of A Uncharacterized Protein Lin1909
pdb|3FIJ|G Chain G, Crystal Structure Of A Uncharacterized Protein Lin1909
pdb|3FIJ|H Chain H, Crystal Structure Of A Uncharacterized Protein Lin1909
Length = 254
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 55/130 (42%), Gaps = 29/130 (22%)
Query: 57 RPVIGILSHPGDGASGRLSNATNA------SYISASYVKFAESGGARVIPLIFNEPEEIL 110
+PVIGI + RL + +Y YV + G I L ++P +
Sbjct: 4 KPVIGITGN-------RLVKGVDVFYGHRVTYTQQRYVDAIQKVGGFPIALPIDDPSTAV 56
Query: 111 FEKLELVNGILYTGGW------------AKSGLYYDIVEKIFKKILEKN-DAGDHFPVYA 157
+ + LV+G+L TGG + G Y+ + ++ DAG P++A
Sbjct: 57 -QAISLVDGLLLTGGQDITPQLYLEEPSQEIGAYFPPRDSYEIALVRAALDAGK--PIFA 113
Query: 158 ICLGFELLSM 167
IC G +L+++
Sbjct: 114 ICRGXQLVNV 123
>pdb|1N8Y|C Chain C, Crystal Structure Of The Extracellular Region Of Rat Her2
Length = 608
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 31/129 (24%), Positives = 47/129 (36%), Gaps = 14/129 (10%)
Query: 9 ILLCLFNELSFAEAESSTILLPSQQHNADSVSTTFCAHCPAPDPSLNY-------RPVIG 61
+ C +N LS + + P+ Q T C C P + Y R
Sbjct: 275 VTTCPYNYLSTEVGSCTLVCPPNNQEVTAEDGTQRCEKCSKPCARVCYGLGMEHLRGARA 334
Query: 62 ILSHPGDGASGRLSNATNASYISASYVKFAESGGARVIPLIFNEPEEI-LFEKLELVNGI 120
I S G + +++ S+ SG + PL PE++ +FE LE + G
Sbjct: 335 ITSDNVQEFDGCKKIFGSLAFLPESFDGDPSSG---IAPL---RPEQLQVFETLEEITGY 388
Query: 121 LYTGGWAKS 129
LY W S
Sbjct: 389 LYISAWPDS 397
>pdb|3EZU|A Chain A, Crystal Structure Of Multidomain Protein Of Unknown
Function With Ggdef-Domain (Np_951600.1) From Geobacter
Sulfurreducens At 1.95 A Resolution
Length = 342
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 33/86 (38%), Gaps = 18/86 (20%)
Query: 33 QHNADSVSTTFCAHCPAPDPSLNYRPVIGILSHPGDGASGRLSNATNASYISASYVKFAE 92
+ A SV F AH + + + V A + SA Y + E
Sbjct: 18 ERKASSVFKXFAAHAGSDEARRFWETV-----------------ADETRHHSAVYERLQE 60
Query: 93 SGGARVIPLIFNEPEEILFEKLELVN 118
GG +P+I +P E L E+LE +
Sbjct: 61 RGGRENLPIIIYKPAETL-EELEXIG 85
>pdb|1TMX|A Chain A, Crystal Structure Of Hydroxyquinol 1,2-Dioxygenase From
Nocardioides Simplex 3e
pdb|1TMX|B Chain B, Crystal Structure Of Hydroxyquinol 1,2-Dioxygenase From
Nocardioides Simplex 3e
Length = 293
Score = 27.3 bits (59), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 66 PGDGASGRLSNATNASYISASYVKFAESGGAR--VIPLIFNEPEEIL 110
P DG GR+ AT S + AS++ F + R ++ IF E +E+L
Sbjct: 200 PHDGPVGRMLAATGRSPMRASHLHFMVTAPGRRTLVTHIFVEGDELL 246
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 0.139 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,046,210
Number of Sequences: 62578
Number of extensions: 287969
Number of successful extensions: 712
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 708
Number of HSP's gapped (non-prelim): 16
length of query: 232
length of database: 14,973,337
effective HSP length: 96
effective length of query: 136
effective length of database: 8,965,849
effective search space: 1219355464
effective search space used: 1219355464
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: 50 (23.9 bits)