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= 024592
(265 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GOP|B Chain B, Structure And Conformational Change Of A Replication
Protein A Heterotrimer Bound To Ssdna
pdb|4GOP|Y Chain Y, Structure And Conformational Change Of A Replication
Protein A Heterotrimer Bound To Ssdna
pdb|4GNX|B Chain B, Structure Of
pdb|4GNX|Y Chain Y, Structure Of
Length = 136
Score = 83.2 bits (204), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 42/129 (32%), Positives = 75/129 (58%), Gaps = 2/129 (1%)
Query: 40 TLLPMTVKQXXXXXXXXXXXXXI-DGADVNTITVVGIVCDMQDKEPQFIFLIDDGTGRIE 98
TL P+T++Q I DGA++ +T V +V ++ + ++DGTG+IE
Sbjct: 8 TLRPVTIRQILNAEQPHPDAEFILDGAELGQLTFVAVVRNISRNATNVAYSVEDGTGQIE 67
Query: 99 CSRW-AHEQMEFNEVNQISKGMYVRVYGHLKAFQDKRSLNAYSLRPIIDFNEITSHFVEC 157
+W + ++ ++I +YVRV G LK+FQ++RS+++ +RP+ID+NE+ H +E
Sbjct: 68 VRQWLDSSSDDSSKASEIRNNVYVRVLGTLKSFQNRRSISSGHMRPVIDYNEVMFHRLEA 127
Query: 158 IYVQLYNTR 166
++ L TR
Sbjct: 128 VHAHLQVTR 136
>pdb|2PI2|A Chain A, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2PI2|B Chain B, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2PI2|C Chain C, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2PI2|D Chain D, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2Z6K|A Chain A, Crystal Structure Of Full-Length Human Rpa1432 HETERODIMER
pdb|2Z6K|B Chain B, Crystal Structure Of Full-Length Human Rpa1432 HETERODIMER
Length = 270
Score = 78.2 bits (191), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 59/243 (24%), Positives = 117/243 (48%), Gaps = 13/243 (5%)
Query: 26 PDPSSSFSKNR-NVRTLLPMTVKQXXXXXXXXXXXXXIDGADVNTITVVGIVCDMQDKEP 84
P PS + K+R + ++P T+ Q I +++ +T+VGI+ +
Sbjct: 30 PAPSQAEKKSRARAQHIVPCTISQLLSATLVDEVFR-IGNVEISQVTIVGIIRHAEKAPT 88
Query: 85 QFIFLIDDGTGR-IECSRWAHEQMEFNEVNQISKGMYVRVYGHLKAFQDKRSLNAYSLRP 143
++ IDD T ++ +W +E + YV+V GHL++FQ+K+SL A+ + P
Sbjct: 89 NIVYKIDDMTAAPMDVRQWVDTDDTSSENTVVPPETYVKVAGHLRSFQNKKSLVAFKIMP 148
Query: 144 IIDFNEITSHFVECIYVQLYNTRLRGGSSNQPQMTNSNHLKEYNAISSNHYSFDEGKSID 203
+ D NE T+H +E I + ++ S ++ + E N + G ++
Sbjct: 149 LEDMNEFTTHILEVINAHMVLSKANSQPSAGRAPISNPGMSEAGNFGGNSFMPANGLTVA 208
Query: 204 Q-MVLDFLR---RPEFLANNNGVHRNVISQQLNLPMDKLMEALESLNENSLVYS-IDEFH 258
Q VL+ ++ RPE L +++ +Q ++ + + +A++ L+ +YS +D+ H
Sbjct: 209 QNQVLNLIKACPRPEGLN-----FQDLKNQLKHMSVSSIKQAVDFLSNEGHIYSTVDDDH 263
Query: 259 YKS 261
+KS
Sbjct: 264 FKS 266
>pdb|2PQA|A Chain A, Crystal Structure Of Full-Length Human Rpa 1432
HETERODIMER
pdb|2PQA|C Chain C, Crystal Structure Of Full-Length Human Rpa 1432
HETERODIMER
Length = 131
Score = 64.7 bits (156), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 55/98 (56%), Gaps = 1/98 (1%)
Query: 62 IDGADVNTITVVGIVCDMQDKEPQFIFLIDDGTGR-IECSRWAHEQMEFNEVNQISKGMY 120
I +++ +T+VGI+ + ++ IDD T ++ +W +E + Y
Sbjct: 25 IGNVEISQVTIVGIIRHAEKAPTNIVYKIDDMTAAPMDVRQWVDTDDTSSENTVVPPETY 84
Query: 121 VRVYGHLKAFQDKRSLNAYSLRPIIDFNEITSHFVECI 158
V+V GHL++FQ+K+SL A+ + P+ D NE T+H +E I
Sbjct: 85 VKVAGHLRSFQNKKSLVAFKIMPLEDMNEFTTHILEVI 122
>pdb|1L1O|B Chain B, Structure Of The Human Replication Protein A (Rpa)
Trimerization Core
pdb|1L1O|E Chain E, Structure Of The Human Replication Protein A (Rpa)
Trimerization Core
Length = 128
Score = 64.7 bits (156), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 55/98 (56%), Gaps = 1/98 (1%)
Query: 62 IDGADVNTITVVGIVCDMQDKEPQFIFLIDDGTGR-IECSRWAHEQMEFNEVNQISKGMY 120
I +++ +T+VGI+ + ++ IDD T ++ +W +E + Y
Sbjct: 23 IGNVEISQVTIVGIIRHAEKAPTNIVYKIDDMTAAPMDVRQWVDTDDTSSENTVVPPETY 82
Query: 121 VRVYGHLKAFQDKRSLNAYSLRPIIDFNEITSHFVECI 158
V+V GHL++FQ+K+SL A+ + P+ D NE T+H +E I
Sbjct: 83 VKVAGHLRSFQNKKSLVAFKIMPLEDMNEFTTHILEVI 120
>pdb|1QUQ|A Chain A, Complex Of Replication Protein A Subunits Rpa14 And Rpa32
pdb|1QUQ|C Chain C, Complex Of Replication Protein A Subunits Rpa14 And Rpa32
Length = 129
Score = 64.3 bits (155), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 55/98 (56%), Gaps = 1/98 (1%)
Query: 62 IDGADVNTITVVGIVCDMQDKEPQFIFLIDDGTGR-IECSRWAHEQMEFNEVNQISKGMY 120
I +++ +T+VGI+ + ++ IDD T ++ +W +E + Y
Sbjct: 24 IGNVEISQVTIVGIIRHAEKAPTNIVYKIDDMTAAPMDVRQWVDTDDTSSENTVVPPETY 83
Query: 121 VRVYGHLKAFQDKRSLNAYSLRPIIDFNEITSHFVECI 158
V+V GHL++FQ+K+SL A+ + P+ D NE T+H +E I
Sbjct: 84 VKVAGHLRSFQNKKSLVAFKIMPLEDMNEFTTHILEVI 121
>pdb|3KDF|D Chain D, X-Ray Crystal Structure Of The Human Replication Protein A
C From Wheat Germ Cell Free Expression
pdb|3KDF|B Chain B, X-Ray Crystal Structure Of The Human Replication Protein A
C From Wheat Germ Cell Free Expression
Length = 132
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 54/98 (55%), Gaps = 1/98 (1%)
Query: 62 IDGADVNTITVVGIVCDMQDKEPQFIFLIDDGTGR-IECSRWAHEQMEFNEVNQISKGMY 120
I +++ +T+VGI+ + ++ IDD T + +W +E + Y
Sbjct: 26 IGNVEISQVTIVGIIRHAEKAPTNIVYKIDDXTAAPXDVRQWVDTDDTSSENTVVPPETY 85
Query: 121 VRVYGHLKAFQDKRSLNAYSLRPIIDFNEITSHFVECI 158
V+V GHL++FQ+K+SL A+ + P+ D NE T+H +E I
Sbjct: 86 VKVAGHLRSFQNKKSLVAFKIXPLEDXNEFTTHILEVI 123
>pdb|1OAH|A Chain A, Cytochrome C Nitrite Reductase From Desulfovibrio
Desulfuricans Atcc 27774: The Relevance Of The Two
Calcium Sites In The Structure Of The Catalytic Subunit
(Nrfa).
pdb|1OAH|B Chain B, Cytochrome C Nitrite Reductase From Desulfovibrio
Desulfuricans Atcc 27774: The Relevance Of The Two
Calcium Sites In The Structure Of The Catalytic Subunit
(Nrfa)
Length = 519
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 35/81 (43%), Gaps = 10/81 (12%)
Query: 185 EYNAISSNHYSFDEGKSIDQMVLDFLRRPEFLANNNGVHRNVISQQLNLPMDKLMEALES 244
EYN + Y+ D+ +ID++ F A+ G N+ + N K+ME +
Sbjct: 111 EYNETRGHTYAIDDFLNIDRIN-------RFAADGKG---NLPATCWNCKTPKMMEWVSQ 160
Query: 245 LNENSLVYSIDEFHYKSAVNA 265
+ ++EF K +NA
Sbjct: 161 YGDKFWSMDVNEFRAKDKINA 181
>pdb|3Q4Z|A Chain A, Structure Of Unphosphorylated Pak1 Kinase Domain
pdb|3Q4Z|B Chain B, Structure Of Unphosphorylated Pak1 Kinase Domain
Length = 306
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 196 FDEGKSIDQMVLDFLRRPEFLANNNGVHRNVISQQLNLPMD 236
DEG+ I + + L+ EFL +N +HRN+ S + L MD
Sbjct: 114 MDEGQ-IAAVCRECLQALEFLHSNQVIHRNIKSDNILLGMD 153
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 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,107,056
Number of Sequences: 62578
Number of extensions: 270371
Number of successful extensions: 547
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 535
Number of HSP's gapped (non-prelim): 15
length of query: 265
length of database: 14,973,337
effective HSP length: 97
effective length of query: 168
effective length of database: 8,903,271
effective search space: 1495749528
effective search space used: 1495749528
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: 50 (23.9 bits)