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= psy647
(190 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2E9X|B Chain B, The Crystal Structure Of Human Gins Core Complex
pdb|2E9X|F Chain F, The Crystal Structure Of Human Gins Core Complex
Length = 185
Score = 176 bits (446), Expect = 6e-45, Method: Compositional matrix adjust.
Identities = 85/172 (49%), Positives = 114/172 (66%), Gaps = 1/172 (0%)
Query: 1 MDPAEIEFIAEDQNVEIIPKFNHLNLIHLISGDVGPFRAGIPAKVPLWLAINLKQRQKCR 60
MD AE+EF+AE + V IIP F+ L+ I+LI GD+GPF G+P +VPLWLAINLKQRQKCR
Sbjct: 1 MDAAEVEFLAEKELVTIIPNFS-LDKIYLIGGDLGPFNPGLPVEVPLWLAINLKQRQKCR 59
Query: 61 LVLPTWMNXXXXXXXXXXXXXSRFFIKMPSDHYMEMSHIILDIGADDIPNVDLIRTLIKD 120
L+ P WM+ F MPS +YME++ ++L+ +D+IP D IRTL+KD
Sbjct: 60 LLPPEWMDVEKLEKMRDHERKEETFTPMPSPYYMELTKLLLNHASDNIPKADEIRTLVKD 119
Query: 121 IWDLRISKLRSSIDTFVKSGGGHATLNHLTQFEINSIRNILCDVLDTMSSLK 172
+WD RI+KLR S D+FV+ HA L++LT EIN+ L L+ M L+
Sbjct: 120 MWDTRIAKLRVSADSFVRQQEAHAKLDNLTLMEINTSGTFLTQALNHMYKLR 171
>pdb|2Q9Q|A Chain A, The Crystal Structure Of Full Length Human Gins Complex
pdb|2Q9Q|E Chain E, The Crystal Structure Of Full Length Human Gins Complex
Length = 191
Score = 176 bits (446), Expect = 7e-45, Method: Compositional matrix adjust.
Identities = 85/172 (49%), Positives = 114/172 (66%), Gaps = 1/172 (0%)
Query: 1 MDPAEIEFIAEDQNVEIIPKFNHLNLIHLISGDVGPFRAGIPAKVPLWLAINLKQRQKCR 60
MD AE+EF+AE + V IIP F+ L+ I+LI GD+GPF G+P +VPLWLAINLKQRQKCR
Sbjct: 7 MDAAEVEFLAEKELVTIIPNFS-LDKIYLIGGDLGPFNPGLPVEVPLWLAINLKQRQKCR 65
Query: 61 LVLPTWMNXXXXXXXXXXXXXSRFFIKMPSDHYMEMSHIILDIGADDIPNVDLIRTLIKD 120
L+ P WM+ F MPS +YME++ ++L+ +D+IP D IRTL+KD
Sbjct: 66 LLPPEWMDVEKLEKMRDHERKEETFTPMPSPYYMELTKLLLNHASDNIPKADEIRTLVKD 125
Query: 121 IWDLRISKLRSSIDTFVKSGGGHATLNHLTQFEINSIRNILCDVLDTMSSLK 172
+WD RI+KLR S D+FV+ HA L++LT EIN+ L L+ M L+
Sbjct: 126 MWDTRIAKLRVSADSFVRQQEAHAKLDNLTLMEINTSGTFLTQALNHMYKLR 177
>pdb|2EHO|C Chain C, Crystal Structure Of Human Gins Complex
pdb|2EHO|G Chain G, Crystal Structure Of Human Gins Complex
pdb|2EHO|K Chain K, Crystal Structure Of Human Gins Complex
Length = 186
Score = 162 bits (411), Expect = 7e-41, Method: Compositional matrix adjust.
Identities = 81/171 (47%), Positives = 109/171 (63%), Gaps = 1/171 (0%)
Query: 2 DPAEIEFIAEDQNVEIIPKFNHLNLIHLISGDVGPFRAGIPAKVPLWLAINLKQRQKCRL 61
D AE+EF+AE + V IIP F+ L+ I+LI GD+GPF G+P +VPLWLAINLKQRQKCRL
Sbjct: 3 DAAEVEFLAEKELVTIIPNFS-LDKIYLIGGDLGPFNPGLPVEVPLWLAINLKQRQKCRL 61
Query: 62 VLPTWMNXXXXXXXXXXXXXSRFFIKMPSDHYMEMSHIILDIGADDIPNVDLIRTLIKDI 121
+ P W + F PS +Y E++ ++L+ +D+IP D IRTL+KD
Sbjct: 62 LPPEWXDVEKLEKXRDHERKEETFTPXPSPYYXELTKLLLNHASDNIPKADEIRTLVKDX 121
Query: 122 WDLRISKLRSSIDTFVKSGGGHATLNHLTQFEINSIRNILCDVLDTMSSLK 172
WD RI+KLR S D+FV+ HA L++LT EIN+ L L+ L+
Sbjct: 122 WDTRIAKLRVSADSFVRQQEAHAKLDNLTLXEINTSGTFLTQALNHXYKLR 172
>pdb|1NW8|A Chain A, Structure Of L72p Mutant Beta Class N6-Adenine Dna
Methyltransferase Rsri
Length = 319
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Query: 132 SIDTFVKSGGGHATLNHLTQFEINSIRNI--LCDVLDTMSSLKD 173
+++ KSG H++ + L EI + R++ +CD LDT++ L D
Sbjct: 13 AMNALRKSGQKHSSESQLGSSEIGTTRHVYDVCDCLDTLAKLPD 56
>pdb|1EG2|A Chain A, Crystal Structure Of Rhodobacter Spheroides (N6 Adenosine)
Methyltransferase (M.Rsri)
pdb|1NW5|A Chain A, Structure Of The Beta Class N6-Adenine Dna
Methyltransferase Rsri Bound To S-Adenosylmethionine
pdb|1NW6|A Chain A, Structure Of The Beta Class N6-Adenine Dna
Methyltransferase Rsri Bound To Sinefungin
pdb|1NW7|A Chain A, Structure Of The Beta Class N6-adenine Dna
Methyltransferase Rsri Bound To
S-adenosyl-l-homocysteine
Length = 319
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 27/44 (61%), Gaps = 2/44 (4%)
Query: 132 SIDTFVKSGGGHATLNHLTQFEINSIRNI--LCDVLDTMSSLKD 173
+++ KSG H++ + L EI + R++ +CD LDT++ L D
Sbjct: 13 AMNALRKSGQKHSSESQLGSSEIGTTRHVYDVCDCLDTLAKLPD 56
>pdb|1TI3|A Chain A, Solution Structure Of The Thioredoxin H1 From Poplar, A
Cppc Active Site Variant
Length = 113
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 24/42 (57%)
Query: 1 MDPAEIEFIAEDQNVEIIPKFNHLNLIHLISGDVGPFRAGIP 42
+D E++ +AE+ NVE +P F L L+ VG + G+P
Sbjct: 63 VDVDELKAVAEEWNVEAMPTFIFLKDGKLVDKTVGADKDGLP 104
>pdb|3PQS|A Chain A, The Crystal Structures Of Porcine Pathogen Aph87_tbpb
Length = 521
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 2/57 (3%)
Query: 86 IKMPSDHYMEMSHI--ILDIGADDIPNVDLIRTLIKDIWDLRISKLRSSIDTFVKSG 140
+ +PS E+S I + D +PN D +RT+ + + ++K S+ FV+SG
Sbjct: 50 VNIPSVRKTEISEIDTVTDESLSLVPNEDKLRTIANENYGSVVTKSGSNTMNFVRSG 106
>pdb|3GB0|A Chain A, Crystal Structure Of Aminopeptidase Pept (Np_980509.1)
From Bacillus Cereus Atcc 10987 At 2.04 A Resolution
Length = 373
Score = 27.7 bits (60), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 19/30 (63%)
Query: 115 RTLIKDIWDLRISKLRSSIDTFVKSGGGHA 144
R+LI + + +++K + + +T K GGHA
Sbjct: 251 RSLINEKXEAQVAKXKEAFETTAKEXGGHA 280
>pdb|1OWL|A Chain A, Structure Of Apophotolyase From Anacystis Nidulans
pdb|1OWM|A Chain A, Data1:dna Photolyase RECEIVED X-Rays Dose 1.2 Exp15
PhotonsMM2
pdb|1OWN|A Chain A, Data3:dna Photolyase RECEIVED X-Rays Dose 4.8 Exp15
PhotonsMM2
pdb|1OWO|A Chain A, Data4:photoreduced Dna Photolyase RECEIVED X-Rays Dose
1.2 Exp15 PhotonsMM2
pdb|1OWP|A Chain A, Data6:photoreduced Dna Pholyase RECEIVED X-Rays Dose 4.8
Exp15 PhotonsMM2
pdb|1QNF|A Chain A, Structure Of Photolyase
Length = 484
Score = 26.9 bits (58), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 4/41 (9%)
Query: 18 IPKFNHLNLIHLISGDVGPF-RAGIPAKVPLWLAINLKQRQ 57
+P+ H++ LISG++ P R G PA + + NL+Q+Q
Sbjct: 426 LPELRHVHPKDLISGEITPIERRGYPAPI---VNHNLRQKQ 463
>pdb|3MGX|A Chain A, Crystal Structure Of P450 Oxyd That Is Involved In The
Biosynthesis Of Vancomycin-Type Antibiotics
pdb|3MGX|B Chain B, Crystal Structure Of P450 Oxyd That Is Involved In The
Biosynthesis Of Vancomycin-Type Antibiotics
Length = 415
Score = 26.9 bits (58), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 33/74 (44%), Gaps = 7/74 (9%)
Query: 109 PNVDLIRTLIKDIWDLRISKLRSSIDTFVKSGGGHATLNHLTQFEINSIRNILCDVLDTM 168
P DL+ TL+ D DL I + + D + G N T+ I + L V +
Sbjct: 225 PGDDLVSTLVTDD-DLTIDDVLLNCDNVLIGG------NETTRHAITGAVHALATVPGLL 277
Query: 169 SSLKDKQCDVDVTL 182
++L+D DVD +
Sbjct: 278 TALRDGSADVDTVV 291
>pdb|1TEZ|A Chain A, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|B Chain B, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|C Chain C, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
pdb|1TEZ|D Chain D, Complex Between Dna And The Dna Photolyase From Anacystis
Nidulans
Length = 474
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 4/41 (9%)
Query: 18 IPKFNHLNLIHLISGDVGPF-RAGIPAKVPLWLAINLKQRQ 57
+P+ H++ LISG++ P R G PA + + NL+Q+Q
Sbjct: 425 LPELRHVHPKDLISGEITPIERRGYPAPI---VNHNLRQKQ 462
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
0.323 0.138 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,026,657
Number of Sequences: 62578
Number of extensions: 180266
Number of successful extensions: 338
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 330
Number of HSP's gapped (non-prelim): 11
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)