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= psy15132
(786 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1JMC|A Chain A, Single Stranded Dna-Binding Domain Of Human Replication
Protein A Bound To Single Stranded Dna, Rpa70 Subunit,
Residues 183-420
Length = 246
Score = 225 bits (574), Expect = 7e-59, Method: Compositional matrix adjust.
Identities = 103/208 (49%), Positives = 152/208 (73%), Gaps = 2/208 (0%)
Query: 444 PIVSLSPYQNKWTIKARVTNKTPIREWNNARGSGKLFSIDLLDESGEIRATMFNDECNRF 503
PI SL+PYQ+KWTI ARVTNK+ IR W+N+RG GKLFS++L+DESGEIRAT FN++ ++F
Sbjct: 10 PIASLTPYQSKWTICARVTNKSQIRTWSNSRGEGKLFSLELVDESGEIRATAFNEQVDKF 69
Query: 504 HDMIEKDKVYYISNCTLKPANKKFSSINNDYEMSFTHSTTVIPCNEDEVGNMPSVKYCFV 563
+IE +KVYY S TLK ANK+F+++ NDYEM+F + T+V+PC +D ++P+V++ F
Sbjct: 70 FPLIEVNKVYYFSKGTLKIANKQFTAVKNDYEMTFNNETSVMPCEDDH--HLPTVQFDFT 127
Query: 564 PLKTIAEISPDENIDVLGVCIDAAELSSVTGKTNQKTYMKRDITLVDQSQASVTMTLWGK 623
+ + S D +D++G+C + + +T ++N + KR+I L+D S VT TLWG+
Sbjct: 128 GIDDLENKSKDSLVDIIGICKSYEDATKITVRSNNREVAKRNIYLMDTSGKVVTATLWGE 187
Query: 624 EAETFDASNKPVIAVKAARVSEFQGNLL 651
+A+ FD S +PV+A+K ARVS+F G L
Sbjct: 188 DADKFDGSRQPVLAIKGARVSDFGGRSL 215
Score = 142 bits (357), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 63/157 (40%), Positives = 103/157 (65%), Gaps = 3/157 (1%)
Query: 6 ANKKFSSINNDYEMSFTHSTTVIPCNEDEVGNMPSVKYCFVPLKTIAEISPDENIDVLGV 65
ANK+F+++ NDYEM+F + T+V+PC +D ++P+V++ F + + S D +D++G+
Sbjct: 89 ANKQFTAVKNDYEMTFNNETSVMPCEDDH--HLPTVQFDFTGIDDLENKSKDSLVDIIGI 146
Query: 66 CIDAAELSSVTGKTNQKTYMKRDITLVDQSQASVTMTLWGKEAETFDASNKPVIAVKAAR 125
C + + +T ++N + KR+I L+D S VT TLWG++A+ FD S +PV+A+K AR
Sbjct: 147 CKSYEDATKITVRSNNREVAKRNIYLMDTSGKVVTATLWGEDADKFDGSRQPVLAIKGAR 206
Query: 126 VSEFQGGKTXXXXXXXXXXXNPDIPECHKLQGWFSTQ 162
VS+F GG++ NPDIPE +KL+GWF +
Sbjct: 207 VSDF-GGRSLSVLSSSTIIANPDIPEAYKLRGWFDAE 242
>pdb|1FGU|A Chain A, Ssdna-Binding Domain Of The Large Subunit Of Replication
Protein A
pdb|1FGU|B Chain B, Ssdna-Binding Domain Of The Large Subunit Of Replication
Protein A
Length = 252
Score = 225 bits (573), Expect = 8e-59, Method: Compositional matrix adjust.
Identities = 103/208 (49%), Positives = 152/208 (73%), Gaps = 2/208 (0%)
Query: 444 PIVSLSPYQNKWTIKARVTNKTPIREWNNARGSGKLFSIDLLDESGEIRATMFNDECNRF 503
PI SL+PYQ+KWTI ARVTNK+ IR W+N+RG GKLFS++L+DESGEIRAT FN++ ++F
Sbjct: 6 PIASLTPYQSKWTICARVTNKSQIRTWSNSRGEGKLFSLELVDESGEIRATAFNEQVDKF 65
Query: 504 HDMIEKDKVYYISNCTLKPANKKFSSINNDYEMSFTHSTTVIPCNEDEVGNMPSVKYCFV 563
+IE +KVYY S TLK ANK+F+++ NDYEM+F + T+V+PC +D ++P+V++ F
Sbjct: 66 FPLIEVNKVYYFSKGTLKIANKQFTAVKNDYEMTFNNETSVMPCEDDH--HLPTVQFDFT 123
Query: 564 PLKTIAEISPDENIDVLGVCIDAAELSSVTGKTNQKTYMKRDITLVDQSQASVTMTLWGK 623
+ + S D +D++G+C + + +T ++N + KR+I L+D S VT TLWG+
Sbjct: 124 GIDDLENKSKDSLVDIIGICKSYEDATKITVRSNNREVAKRNIYLMDTSGKVVTATLWGE 183
Query: 624 EAETFDASNKPVIAVKAARVSEFQGNLL 651
+A+ FD S +PV+A+K ARVS+F G L
Sbjct: 184 DADKFDGSRQPVLAIKGARVSDFGGRSL 211
Score = 142 bits (357), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 63/157 (40%), Positives = 103/157 (65%), Gaps = 3/157 (1%)
Query: 6 ANKKFSSINNDYEMSFTHSTTVIPCNEDEVGNMPSVKYCFVPLKTIAEISPDENIDVLGV 65
ANK+F+++ NDYEM+F + T+V+PC +D ++P+V++ F + + S D +D++G+
Sbjct: 85 ANKQFTAVKNDYEMTFNNETSVMPCEDDH--HLPTVQFDFTGIDDLENKSKDSLVDIIGI 142
Query: 66 CIDAAELSSVTGKTNQKTYMKRDITLVDQSQASVTMTLWGKEAETFDASNKPVIAVKAAR 125
C + + +T ++N + KR+I L+D S VT TLWG++A+ FD S +PV+A+K AR
Sbjct: 143 CKSYEDATKITVRSNNREVAKRNIYLMDTSGKVVTATLWGEDADKFDGSRQPVLAIKGAR 202
Query: 126 VSEFQGGKTXXXXXXXXXXXNPDIPECHKLQGWFSTQ 162
VS+F GG++ NPDIPE +KL+GWF +
Sbjct: 203 VSDF-GGRSLSVLSSSTIIANPDIPEAYKLRGWFDAE 238
>pdb|4GOP|C Chain C, Structure And Conformational Change Of A Replication
Protein A Heterotrimer Bound To Ssdna
pdb|4GOP|Z Chain Z, Structure And Conformational Change Of A Replication
Protein A Heterotrimer Bound To Ssdna
pdb|4GNX|C Chain C, Structure Of
pdb|4GNX|Z Chain Z, Structure Of
Length = 444
Score = 205 bits (522), Expect = 7e-53, Method: Compositional matrix adjust.
Identities = 99/215 (46%), Positives = 143/215 (66%), Gaps = 6/215 (2%)
Query: 443 HPIVSLSPYQNKWTIKARVTNKTPIREWNNARGSGKLFSIDLLDESGEIRATMFNDECNR 502
+PI LSPYQN+WTIKARVT+K+ IR W+N RG GKLFS++LLD+SGEI+AT FND +R
Sbjct: 4 YPIEGLSPYQNRWTIKARVTSKSDIRHWSNQRGEGKLFSVNLLDDSGEIKATGFNDAVDR 63
Query: 503 FHDMIEKDKVYYISNCTLKPANKKFSSINNDYEMSFTHSTTVIPCNEDEVGNMPSVKYCF 562
F+ +++++ VY IS + A K+FS++ N+YE++F +ST + C + ++P VKY F
Sbjct: 64 FYPLLQENHVYLISKARVNIAKKQFSNLQNEYEITFENSTEIEECT--DATDVPEVKYEF 121
Query: 563 VPLKTIAEISPDENIDVLGVCIDAAELSSVTGKTNQKTYMKRDITLVDQSQASVTMTLWG 622
V + + + ++ DV+G+ ELS + K +Q+ KR++TLVDQ SV +TLWG
Sbjct: 122 VRINELESVEANQQCDVIGILDSYGELSEIVSKASQRPVQKRELTLVDQGNRSVKLTLWG 181
Query: 623 KEAETF----DASNKPVIAVKAARVSEFQGNLLLM 653
K AETF KPV+A K +V +F G L M
Sbjct: 182 KTAETFPTNAGVDEKPVLAFKGVKVGDFGGRSLSM 216
Score = 205 bits (521), Expect = 9e-53, Method: Compositional matrix adjust.
Identities = 113/338 (33%), Positives = 181/338 (53%), Gaps = 22/338 (6%)
Query: 6 ANKKFSSINNDYEMSFTHSTTVIPCNEDEVGNMPSVKYCFVPLKTIAEISPDENIDVLGV 65
A K+FS++ N+YE++F +ST + C + ++P VKY FV + + + ++ DV+G+
Sbjct: 84 AKKQFSNLQNEYEITFENSTEIEECTD--ATDVPEVKYEFVRINELESVEANQQCDVIGI 141
Query: 66 CIDAAELSSVTGKTNQKTYMKRDITLVDQSQASVTMTLWGKEAETF----DASNKPVIAV 121
ELS + K +Q+ KR++TLVDQ SV +TLWGK AETF KPV+A
Sbjct: 142 LDSYGELSEIVSKASQRPVQKRELTLVDQGNRSVKLTLWGKTAETFPTNAGVDEKPVLAF 201
Query: 122 KAARVSEFQGGKTXXXXXXXXXXXNPDIPECHKLQGWFSTQ-TNTRFEPVSQRTXXXXXX 180
K +V +F GG++ NPDI E H L+GW+ + +F+P +
Sbjct: 202 KGVKVGDF-GGRSLSMFSSSTMLINPDITESHVLRGWYDNDGAHAQFQPYTNGGVGGGAM 260
Query: 181 XXXXXXXXR-------EIQDQQLGMGDKADYCSVRGIIQVFRGSNTTYKACPSQDCNKKV 233
+++D+ LGM +K DY +VR + + N Y AC S+ CNKKV
Sbjct: 261 GGGGAGANMAERRTIVQVKDENLGMSEKPDYFNVRATVVYIKQENLYYTACASEGCNKKV 320
Query: 234 -IDQNNGMYRCEKCNKEFNTFTYRLILPVMIGDWTNSVWVTLFQNEAESILGVTAQEVGE 292
+D N +RCEKC++ + T YR IL + D T +W++ F +A ++G++A E+ +
Sbjct: 321 NLDHENN-WRCEKCDRSYATPEYRYILSTNVADATGQMWLSGFNEDATQLIGMSAGELHK 379
Query: 293 STED-----HPALKKALFTQYIFRLRAKLEHYNGTKKI 325
E+ AL +A Y+F RAK++ +N T ++
Sbjct: 380 LREESESEFSAALHRAANRMYMFNCRAKMDTFNDTARV 417
Score = 97.4 bits (241), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 49/137 (35%), Positives = 80/137 (58%), Gaps = 7/137 (5%)
Query: 655 EIQDQQLGMGDKADYCSVRGIIQVFRGSNTTYKACPSQDCNKKV-IDQNNGMYRCEKCNK 713
+++D+ LGM +K DY +VR + + N Y AC S+ CNKKV +D N +RCEKC++
Sbjct: 277 QVKDENLGMSEKPDYFNVRATVVYIKQENLYYTACASEGCNKKVNLDHENN-WRCEKCDR 335
Query: 714 EFNTFTYRLILPVMIGDWTNSVWVTLFQNEAESILGVTAQEVGESTED-----HPALKKA 768
+ T YR IL + D T +W++ F +A ++G++A E+ + E+ AL +A
Sbjct: 336 SYATPEYRYILSTNVADATGQMWLSGFNEDATQLIGMSAGELHKLREESESEFSAALHRA 395
Query: 769 LFTQYIFRLRAKLEHYN 785
Y+F RAK++ +N
Sbjct: 396 ANRMYMFNCRAKMDTFN 412
>pdb|1L1O|C Chain C, Structure Of The Human Replication Protein A (Rpa)
Trimerization Core
pdb|1L1O|F Chain F, Structure Of The Human Replication Protein A (Rpa)
Trimerization Core
Length = 181
Score = 139 bits (349), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 68/145 (46%), Positives = 88/145 (60%), Gaps = 5/145 (3%)
Query: 190 EIQDQQLGMGDKADYCSVRGIIQVFRGSNTTYKACPSQDCNKKVIDQNNGMYRCEKCNKE 249
E++ + LG GDK DY S + R N Y+ACP+QDCNKKVIDQ NG+YRCEKC+ E
Sbjct: 12 EVKSENLGQGDKPDYFSSVATVVYLRKENCMYQACPTQDCNKKVIDQQNGLYRCEKCDTE 71
Query: 250 FNTFTYRLILPVMIGDWTNSVWVTLFQNEAESILGVTAQEVGESTEDH-----PALKKAL 304
F F YR+IL V I D+ + WVT FQ AE+ILG A +GE + + + A
Sbjct: 72 FPNFKYRMILSVNIADFQENQWVTCFQESAEAILGQNAAYLGELKDKNEQAFEEVFQNAN 131
Query: 305 FTQYIFRLRAKLEHYNGTKKIPDGV 329
F +IFR+R K+E YN +I V
Sbjct: 132 FRSFIFRVRVKVETYNDESRIKATV 156
Score = 137 bits (346), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 67/142 (47%), Positives = 87/142 (61%), Gaps = 5/142 (3%)
Query: 649 NLLLMREIQDQQLGMGDKADYCSVRGIIQVFRGSNTTYKACPSQDCNKKVIDQNNGMYRC 708
N + E++ + LG GDK DY S + R N Y+ACP+QDCNKKVIDQ NG+YRC
Sbjct: 6 NWKTLYEVKSENLGQGDKPDYFSSVATVVYLRKENCMYQACPTQDCNKKVIDQQNGLYRC 65
Query: 709 EKCNKEFNTFTYRLILPVMIGDWTNSVWVTLFQNEAESILGVTAQEVGESTEDH-----P 763
EKC+ EF F YR+IL V I D+ + WVT FQ AE+ILG A +GE + +
Sbjct: 66 EKCDTEFPNFKYRMILSVNIADFQENQWVTCFQESAEAILGQNAAYLGELKDKNEQAFEE 125
Query: 764 ALKKALFTQYIFRLRAKLEHYN 785
+ A F +IFR+R K+E YN
Sbjct: 126 VFQNANFRSFIFRVRVKVETYN 147
>pdb|1YNX|A Chain A, Solution Structure Of Dna Binding Domain A (Dbd-A) Of
S.Cerevisiae Replication Protein A (Rpa)
Length = 114
Score = 115 bits (288), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 52/109 (47%), Positives = 76/109 (69%), Gaps = 3/109 (2%)
Query: 442 THPIVS---LSPYQNKWTIKARVTNKTPIREWNNARGSGKLFSIDLLDESGEIRATMFND 498
T PI + LSPYQN WTIKARV+ K I+ W+N RG GKLF+++ LD SGEIRAT FND
Sbjct: 1 TRPIFAIEQLSPYQNVWTIKARVSYKGEIKTWHNQRGDGKLFNVNFLDTSGEIRATAFND 60
Query: 499 ECNRFHDMIEKDKVYYISNCTLKPANKKFSSINNDYEMSFTHSTTVIPC 547
+F++++++ KVYY+S L+PA +F+++ + YE++ T + C
Sbjct: 61 FATKFNEILQEGKVYYVSKAKLQPAKPQFTNLTHPYELNLDRDTVIEEC 109
>pdb|2B29|A Chain A, N-Terminal Domain Of The Rpa70 Subunit Of Human
Replication Protein A.
pdb|2B3G|A Chain A, P53n (Fragment 33-60) Bound To Rpa70n
Length = 123
Score = 59.7 bits (143), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 32/74 (43%), Positives = 46/74 (62%), Gaps = 4/74 (5%)
Query: 327 DGVNINSFAMLATQLNDIITDGTLSEFTIVQIKRYIVSGVSSGSATNRSVLIILELNIIK 386
DG+N S MLATQLN ++ + LS + QI R+IV+ + G R V+I++EL ++K
Sbjct: 51 DGLNTLSSFMLATQLNPLVEEEQLSSNCVCQIHRFIVNTLKDG----RRVVILMELEVLK 106
Query: 387 PGTEIGFKIGNPQP 400
+G KIGNP P
Sbjct: 107 SAEAVGVKIGNPVP 120
>pdb|1EWI|A Chain A, Human Replication Protein A: Global Fold Of The N-Terminal
Rpa-70 Domain Reveals A Basic Cleft And Flexible C-
Terminal Linker
Length = 114
Score = 54.7 bits (130), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 30/71 (42%), Positives = 44/71 (61%), Gaps = 4/71 (5%)
Query: 327 DGVNINSFAMLATQLNDIITDGTLSEFTIVQIKRYIVSGVSSGSATNRSVLIILELNIIK 386
DG+N S MLATQLN ++ + LS + QI R+IV+ + G R V+I++EL ++K
Sbjct: 48 DGLNTLSSFMLATQLNPLVEEEQLSSNCVCQIHRFIVNTLKDG----RRVVILMELEVLK 103
Query: 387 PGTEIGFKIGN 397
+G KIGN
Sbjct: 104 SAEAVGVKIGN 114
>pdb|3DM3|A Chain A, Crystal Structure Of A Domain Of A Replication Factor A
Protein, From Methanocaldococcus Jannaschii. Northeast
Structural Genomics Target Mjr118e
pdb|3DM3|B Chain B, Crystal Structure Of A Domain Of A Replication Factor A
Protein, From Methanocaldococcus Jannaschii. Northeast
Structural Genomics Target Mjr118e
pdb|3DM3|C Chain C, Crystal Structure Of A Domain Of A Replication Factor A
Protein, From Methanocaldococcus Jannaschii. Northeast
Structural Genomics Target Mjr118e
Length = 105
Score = 37.4 bits (85), Expect = 0.036, Method: Composition-based stats.
Identities = 23/58 (39%), Positives = 34/58 (58%), Gaps = 2/58 (3%)
Query: 442 THPIVSLSPYQNKWTIKARVTNKTPIREWNNARGS-GKLFSIDLLDESGEIRATMFND 498
T+ I LSP T + V + PI+E+ A GS GKL S + DE+G IR T++++
Sbjct: 5 TYNIGELSPGMTA-TFEGEVISALPIKEFKRADGSIGKLKSFIVRDETGSIRVTLWDN 61
>pdb|2AE6|A Chain A, Crystal Structure Of Acetyltransferase Of Gnat Family From
Enterococcus Faecalis V583
pdb|2AE6|B Chain B, Crystal Structure Of Acetyltransferase Of Gnat Family From
Enterococcus Faecalis V583
pdb|2AE6|C Chain C, Crystal Structure Of Acetyltransferase Of Gnat Family From
Enterococcus Faecalis V583
pdb|2AE6|D Chain D, Crystal Structure Of Acetyltransferase Of Gnat Family From
Enterococcus Faecalis V583
Length = 166
Score = 29.3 bits (64), Expect = 9.7, Method: Composition-based stats.
Identities = 23/81 (28%), Positives = 36/81 (44%), Gaps = 7/81 (8%)
Query: 429 VAIPRQASAPVVQTHPIVSLSPYQNKWTIKARVTNKTPIREWNNARGSGKLFSIDLLDES 488
VAI Q A ++ HP SL+ +Q +W + V +P + GS + D + S
Sbjct: 57 VAISGQQLAGFIEVHPPTSLAAHQKQWLLSIGV---SPDFQDQGIGGSLLSYIKDXAEIS 113
Query: 489 G----EIRATMFNDECNRFHD 505
G +R N E RF++
Sbjct: 114 GIHKLSLRVXATNQEAIRFYE 134
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
0.316 0.131 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,836,899
Number of Sequences: 62578
Number of extensions: 871963
Number of successful extensions: 1990
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1958
Number of HSP's gapped (non-prelim): 24
length of query: 786
length of database: 14,973,337
effective HSP length: 107
effective length of query: 679
effective length of database: 8,277,491
effective search space: 5620416389
effective search space used: 5620416389
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)