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= 012346
(465 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EC4|A Chain A, Solution Structure Of The Uas Domain From Human Fas-
Associated Factor 1
Length = 178
Score = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 43/174 (24%), Positives = 75/174 (43%), Gaps = 27/174 (15%)
Query: 131 NSGRSGESSTRLASVSAAALEAMEFVAVFERDYGNVKPNF----VSEGFMDALQRSRSVF 186
+SG SGE+ A AL ++F A F YG+ P F + F +A
Sbjct: 2 SSGSSGEN----AENEGDAL--LQFTAEFSSRYGDCHPVFFIGSLEAAFQEAFYVKARDR 55
Query: 187 KLLFVYLHSPDHPDTPAFCEGTLCNEVLAAFVNENFVSWGGSIRASEG----FKMSN--- 239
KLL +YLH + T FC LC E + +++++NF++W + M N
Sbjct: 56 KLLAIYLHHDESVLTNVFCSQMLCAESIVSYLSQNFITWAWDLTKDSNRARFLTMCNRHF 115
Query: 240 ---------SLKASRYPFCAVVMPAANQRIALLQQVEGPKSPEEMLMILQKVIE 284
+ K ++P ++M + +L ++G + +E++M L +E
Sbjct: 116 GSVVAQTIRTQKTDQFPLFLIIMGKRSSN-EVLNVIQGNTTVDELMMRLMAAME 168
>pdb|3QQ8|B Chain B, Crystal Structure Of P97-N In Complex With Faf1-Ubx
pdb|3R3M|B Chain B, Crystal Structure Of The Faf1 Ubx Domain
pdb|3R3M|A Chain A, Crystal Structure Of The Faf1 Ubx Domain
pdb|3R3M|C Chain C, Crystal Structure Of The Faf1 Ubx Domain
pdb|3R3M|D Chain D, Crystal Structure Of The Faf1 Ubx Domain
Length = 85
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 33/88 (37%), Positives = 51/88 (57%), Gaps = 6/88 (6%)
Query: 376 LSLGAEPEKGPNVTQVLVRFPNGERKERRFHSTAVVQLLYDYVDSLGCLEVQNYSLVSNF 435
+S AEP V+++ +R P+GE ERRF ++ +Q+++D+V S G Y L+S F
Sbjct: 1 MSENAEP-----VSKLRIRTPSGEFLERRFLASNKLQIVFDFVASKG-FPWDEYKLLSTF 54
Query: 436 PRVVYSTDKFSLSLKEAGLHPQASLFVE 463
PR + + SL E L PQ +LF+E
Sbjct: 55 PRRDVTQLDPNKSLLEVKLFPQETLFLE 82
>pdb|1H8C|A Chain A, Ubx Domain From Human Faf1
Length = 82
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/85 (37%), Positives = 49/85 (57%), Gaps = 6/85 (7%)
Query: 379 GAEPEKGPNVTQVLVRFPNGERKERRFHSTAVVQLLYDYVDSLGCLEVQNYSLVSNFPRV 438
AEP V+++ +R P+GE ERRF ++ +Q+++D+V S G Y L+S FPR
Sbjct: 1 NAEP-----VSKLRIRTPSGEFLERRFLASNKLQIVFDFVASKG-FPWDEYKLLSTFPRR 54
Query: 439 VYSTDKFSLSLKEAGLHPQASLFVE 463
+ + SL E L PQ +LF+E
Sbjct: 55 DVTQLDPNKSLLEVKLFPQETLFLE 79
>pdb|3QCA|A Chain A, Crystal Structure Of Faf1 Ubx Domain In Complex With
P97VCP N DOMAIN Reveals The Conserved Fcisp Touch-Turn
Motif Of Ubx Domain Suffering Conformational Change
pdb|3QCA|B Chain B, Crystal Structure Of Faf1 Ubx Domain In Complex With
P97VCP N DOMAIN Reveals The Conserved Fcisp Touch-Turn
Motif Of Ubx Domain Suffering Conformational Change
pdb|3QCA|C Chain C, Crystal Structure Of Faf1 Ubx Domain In Complex With
P97VCP N DOMAIN Reveals The Conserved Fcisp Touch-Turn
Motif Of Ubx Domain Suffering Conformational Change
pdb|3QCA|D Chain D, Crystal Structure Of Faf1 Ubx Domain In Complex With
P97VCP N DOMAIN Reveals The Conserved Fcisp Touch-Turn
Motif Of Ubx Domain Suffering Conformational Change
pdb|3QC8|B Chain B, Crystal Structure Of Faf1 Ubx Domain In Complex With
P97VCP N DOMAIN Reveals The Conserved Fcisp Touch-Turn
Motif Of Ubx Domain Suffering Conformational Change
Length = 84
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 46/76 (60%), Gaps = 1/76 (1%)
Query: 388 VTQVLVRFPNGERKERRFHSTAVVQLLYDYVDSLGCLEVQNYSLVSNFPRVVYSTDKFSL 447
V+++ +R P+GE ERRF ++ +Q+++D+V S G Y L+S FPR + +
Sbjct: 7 VSKLRIRTPSGEFLERRFLASNKLQIVFDFVASKG-FPWDEYKLLSTFPRRDVTQLDPNK 65
Query: 448 SLKEAGLHPQASLFVE 463
SL E L PQ +LF+E
Sbjct: 66 SLLEVKLFPQETLFLE 81
>pdb|3QX1|A Chain A, Crystal Structure Of Faf1 Ubx Domain
pdb|3QX1|B Chain B, Crystal Structure Of Faf1 Ubx Domain
Length = 84
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 46/76 (60%), Gaps = 1/76 (1%)
Query: 388 VTQVLVRFPNGERKERRFHSTAVVQLLYDYVDSLGCLEVQNYSLVSNFPRVVYSTDKFSL 447
V+++ +R P+GE ERRF ++ +Q+++D+V S G Y L+S FPR + +
Sbjct: 7 VSKLRIRTPSGEFLERRFLASNKLQIVFDFVASKG-FPWDEYKLLSTFPRRDVTQLDPNK 65
Query: 448 SLKEAGLHPQASLFVE 463
SL E L PQ +LF+E
Sbjct: 66 SLLEVKLFPQETLFLE 81
>pdb|1WJ4|A Chain A, Solution Structure Of The Ubx Domain Of Kiaa0794 Protein
Length = 124
Score = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 48/79 (60%), Gaps = 2/79 (2%)
Query: 385 GPNVTQVLVRFPNGERKERRFHSTAVVQLLYDYVDSLGCLEVQNYSLVSNFPRVVYSTDK 444
GP Q+++R+P+G+R++ A + L +V S G + + L++NFPR S
Sbjct: 41 GPKA-QLMLRYPDGKREQITLPEQAKLLALVKHVQSKGYPN-ERFELLTNFPRRKLSHLD 98
Query: 445 FSLSLKEAGLHPQASLFVE 463
+ ++L+EAGL PQ ++FV+
Sbjct: 99 YDITLQEAGLCPQETVFVQ 117
>pdb|3QWZ|B Chain B, Crystal Structure Of Faf1 Ubx-P97n-Domain Complex
Length = 84
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 46/76 (60%), Gaps = 1/76 (1%)
Query: 388 VTQVLVRFPNGERKERRFHSTAVVQLLYDYVDSLGCLEVQNYSLVSNFPRVVYSTDKFSL 447
V+++ +R P+GE ERRF ++ +Q+++D+V S G Y L+S FPR + +
Sbjct: 7 VSKLRIRTPSGEFLERRFLASNKLQIVFDFVASKG-FPWDEYXLLSTFPRRDVTQLDPNK 65
Query: 448 SLKEAGLHPQASLFVE 463
SL E L PQ +LF+E
Sbjct: 66 SLLEVKLFPQETLFLE 81
>pdb|2DAM|A Chain A, Solution Structure Of The Novel Identified Uba-Like
Domain In The N-Terminal Of Human Etea Protein
Length = 67
Score = 38.5 bits (88), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 5 ADKLAYFQAITGLEDPDLCTEILQAHDWDLELAI 38
+KL FQ +TG+E D C L+ H+W++E A+
Sbjct: 19 TEKLLQFQDLTGIESMDQCRHTLEQHNWNIEAAV 52
>pdb|2CR5|A Chain A, Solution Structure Of The Ubx Domain Of D0h8s2298e Protein
Length = 109
Score = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 41/87 (47%), Gaps = 3/87 (3%)
Query: 378 LGAEP-EKGPNVTQVLVRFPNGERKERRFHSTAVVQLLYDYVDSLGCLEVQNYSLVSNFP 436
L EP E V V +R PNG RRF + Q+L D++ +G Y L ++FP
Sbjct: 12 LPEEPSETAEEVVTVALRCPNGRVLRRRFFKSWNSQVLLDWMMKVG-YHKSLYRLSTSFP 70
Query: 437 RVVYSTDKFSLSLKEAGLHPQASLFVE 463
R + S SL++ G+ L VE
Sbjct: 71 RRALEVEGGS-SLEDIGITVDTVLNVE 96
>pdb|4G1E|A Chain A, Crystal Structure Of Integrin Alpha V Beta 3 With
Coil-Coiled Tag
Length = 998
Score = 33.1 bits (74), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 167 KPNFVSEGFMDALQRSRSVFKLLFVYLHSPDHPDTPAFCEGTL--CNEVLAAFVNEN 221
K NF E +D L++ ++ + LF+Y SP H G L C E++A +E+
Sbjct: 490 KLNFQVELLLDKLKQKGAIRRALFLYSRSPSHSKNMTISRGGLMQCEELIAYLRDES 546
>pdb|4G1M|A Chain A, Re-Refinement Of Alpha V Beta 3 Structure
Length = 959
Score = 33.1 bits (74), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 167 KPNFVSEGFMDALQRSRSVFKLLFVYLHSPDHPDTPAFCEGTL--CNEVLAAFVNEN 221
K NF E +D L++ ++ + LF+Y SP H G L C E++A +E+
Sbjct: 490 KLNFQVELLLDKLKQKGAIRRALFLYSRSPSHSKNMTISRGGLMQCEELIAYLRDES 546
>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 = 33.1 bits (74), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 167 KPNFVSEGFMDALQRSRSVFKLLFVYLHSPDHPDTPAFCEGTL--CNEVLAAFVNEN 221
K NF E +D L++ ++ + LF+Y SP H G L C E++A +E+
Sbjct: 490 KLNFQVELLLDKLKQKGAIRRALFLYSRSPSHSKNMTISRGGLMQCEELIAYLRDES 546
>pdb|3IJE|A Chain A, Crystal Structure Of The Complete Integrin Alhavbeta3
Ectodomain Plus An Alpha/beta Transmembrane Fragment
Length = 967
Score = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 167 KPNFVSEGFMDALQRSRSVFKLLFVYLHSPDHPDTPAFCEGTL--CNEVLAAFVNEN 221
K NF E +D L++ ++ + LF+Y SP H G L C E++A +E+
Sbjct: 490 KLNFQVELLLDKLKQKGAIRRALFLYSRSPSHSKNMTISRGGLMQCEELIAYLRDES 546
>pdb|3E21|A Chain A, Crystal Structure Of Faf-1 Uba Domain
Length = 45
Score = 32.7 bits (73), Expect = 0.45, Method: Composition-based stats.
Identities = 15/32 (46%), Positives = 22/32 (68%)
Query: 8 LAYFQAITGLEDPDLCTEILQAHDWDLELAIS 39
LA FQA TG+E+ D +L+ ++WDL AI+
Sbjct: 9 LADFQACTGIENIDEAITLLEQNNWDLVAAIN 40
>pdb|1VDL|A Chain A, Solution Structure Of Rsgi Ruh-013, A Uba Domain In
Mouse Cdna
Length = 80
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 8 LAYFQAITGLEDPDLCTEILQAHDWDLELAISSFTSSN--PPPERQEQTPNT 57
L + ITG+ D + + L+ + +LELA++ T+ N PP+ + P++
Sbjct: 28 LNQLREITGINDAQILQQALKDSNGNLELAVAFLTAKNAKTPPQEETSGPSS 79
>pdb|2KXJ|A Chain A, Solution Structure Of Ubx Domain Of Human Ubxd2 Protein
Length = 90
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 33/74 (44%)
Query: 387 NVTQVLVRFPNGERKERRFHSTAVVQLLYDYVDSLGCLEVQNYSLVSNFPRVVYSTDKFS 446
V ++ R P+G +F S A ++ + N+SL + FPR ++ + +
Sbjct: 11 TVARIQFRLPDGSSFTNQFPSDAPLEEARQFAAQTVGNTYGNFSLATMFPRREFTKEDYK 70
Query: 447 LSLKEAGLHPQASL 460
L + L P AS+
Sbjct: 71 KKLLDLELAPSASV 84
>pdb|2LVA|A Chain A, Nmr Solution Structure Of The N-Terminal Domain Of Human
Usp28, Northeast Structural Genomics Consortium Target
Ht8470a
Length = 129
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 11/77 (14%)
Query: 8 LAYFQAITGLEDPDLCTEILQAHDWDLELAISSFTS-----------SNPPPERQEQTPN 56
L + ITG++DP E L+A + D+ A+S T + P E + N
Sbjct: 22 LNQLREITGIQDPSFLHEALKASNGDITQAVSLLTDERVKEPSQDTVATEPSEVEGSAAN 81
Query: 57 TQVTANLLSRDGQNRVD 73
+V A ++ N+ D
Sbjct: 82 KEVLAKVIDLTHDNKDD 98
>pdb|1V92|A Chain A, Solution Structure Of The Uba Domain From P47, A Major
Cofactor Of The Aaa Atpase P97
Length = 46
Score = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 23/36 (63%), Gaps = 1/36 (2%)
Query: 6 DKLAYFQAITGLEDPDLCTEILQAHDWDLELAISSF 41
D L F A+TG E+ D L++ WDL++A++SF
Sbjct: 7 DALREFVAVTGAEE-DRARFFLESAGWDLQIALASF 41
>pdb|2DLX|A Chain A, Solution Structure Of The Uas Domain Of Human Ubx Domain-
Containing Protein 7
Length = 153
Score = 28.9 bits (63), Expect = 5.9, Method: Composition-based stats.
Identities = 12/57 (21%), Positives = 27/57 (47%)
Query: 211 NEVLAAFVNENFVSWGGSIRASEGFKMSNSLKASRYPFCAVVMPAANQRIALLQQVE 267
NE + + E+F+ W + EG + K +P+ +++ P Q++ Q++
Sbjct: 67 NEAVKNIIREHFIFWQVYHDSEEGQRYIQFYKLGDFPYVSILDPRTGQKLVEWHQLD 123
>pdb|2C46|A Chain A, Crystal Structure Of The Human Rna Guanylyltransferase And
5'-Phosphatase
pdb|2C46|B Chain B, Crystal Structure Of The Human Rna Guanylyltransferase And
5'-Phosphatase
pdb|2C46|C Chain C, Crystal Structure Of The Human Rna Guanylyltransferase And
5'-Phosphatase
pdb|2C46|D Chain D, Crystal Structure Of The Human Rna Guanylyltransferase And
5'-Phosphatase
Length = 241
Score = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 8/26 (30%), Positives = 17/26 (65%)
Query: 22 LCTEILQAHDWDLELAISSFTSSNPP 47
+C +++ DW +E A+++F + PP
Sbjct: 159 ICAFLVEKMDWSIEAAVATFAQARPP 184
>pdb|1I9T|A Chain A, Crystal Structure Of The Oxidized Rna Triphosphatase
Domain Of Mouse Mrna Capping Enzyme
Length = 210
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 8/26 (30%), Positives = 17/26 (65%)
Query: 22 LCTEILQAHDWDLELAISSFTSSNPP 47
+C +++ DW +E A+++F + PP
Sbjct: 137 ICAFLVEKMDWSIEAAVATFAQARPP 162
>pdb|1I9S|A Chain A, Crystal Structure Of The Rna Triphosphatase Domain Of
Mouse Mrna Capping Enzyme
Length = 210
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 8/26 (30%), Positives = 17/26 (65%)
Query: 22 LCTEILQAHDWDLELAISSFTSSNPP 47
+C +++ DW +E A+++F + PP
Sbjct: 137 ICAFLVEKMDWSIEAAVATFAQARPP 162
>pdb|2DZK|A Chain A, Structure Of The Ubx Domain In Mouse Ubx Domain-Containing
Protein 2
Length = 109
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 33/74 (44%)
Query: 387 NVTQVLVRFPNGERKERRFHSTAVVQLLYDYVDSLGCLEVQNYSLVSNFPRVVYSTDKFS 446
+ ++ R P+G +F S A ++ + N+SL + FPR ++ + +
Sbjct: 12 TIARIQFRLPDGSSFTNQFPSDAPLEEARQFAAQTVGNTYGNFSLATMFPRREFTREDYK 71
Query: 447 LSLKEAGLHPQASL 460
L + L P AS+
Sbjct: 72 RRLLDLELAPSASV 85
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
0.317 0.132 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,455,891
Number of Sequences: 62578
Number of extensions: 363279
Number of successful extensions: 744
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 725
Number of HSP's gapped (non-prelim): 23
length of query: 465
length of database: 14,973,337
effective HSP length: 102
effective length of query: 363
effective length of database: 8,590,381
effective search space: 3118308303
effective search space used: 3118308303
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)