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= 039337
(1344 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PSI|A Chain A, Crystal Structure Of The Spt6 Core Domain From Saccharomyces
Cerevisiae, Form Spt6(239-1451)
Length = 1219
Score = 217 bits (552), Expect = 4e-56, Method: Compositional matrix adjust.
Identities = 241/1096 (21%), Positives = 451/1096 (41%), Gaps = 86/1096 (7%)
Query: 53 GHDLSISRDDIMRFLDLLHLQKLDIPFIAMYRKEECLSLLKDLEQNEVXXXXXXXFERTP 112
+DL+ ++ I + + + L++PFI YR+ S KD
Sbjct: 132 NYDLTEFKEAIGNAIKFITKENLEVPFIYAYRRNYISSREKD-----------------G 174
Query: 113 TLKWHKVLWAIHDLDKKWLLLQKRKSALQSYYKKRYEEESRRI-YDETRLALNQQLFDSI 171
L LW I LD ++ L +K +Q +Y + + ++ Y + + + +S+
Sbjct: 175 FLLTEDDLWDIVSLDIEFHSLVNKKDYVQRFYAELHIDDPIVTEYFKNQNTASIAELNSL 234
Query: 172 SKSLEAAETEREVDDVDLKFNLHFPPGEVGVDEGQYKRPKRSTKYSSCSKAGLWEVASKF 231
+ E + + ++ N G+ + Y++ K S Y + S G+ A
Sbjct: 235 QDIYDYLEFKYANEINEMFINHTGKTGKKHLKNSSYEKFKASPLYQAVSDIGI--SAEDV 292
Query: 232 GYXXXXXXXXXXXXKMGDELEDPKETPEEM------ASNFKCAMFNS-SQAVLQGARHMA 284
G ++ ++ P P E+ A++ +F S ++ + +
Sbjct: 293 G------ENISSQHQIHPPVDHPSSKPVEVIESILNANSGDLQVFTSNTKLAIDTVQKYY 346
Query: 285 AVEISCEPCVRKYVRSIFMDNAVVSTCPTPDGDSAIDSFHQFAGVKWLREKPLRKFEDAQ 344
++E+S +R+ VRS F + T G I + +K+ + F
Sbjct: 347 SLELSKNTKIREKVRSDFSKYYLADVVLTAKGKKEIQKGSLYEDIKYAINRTPMHFRRDP 406
Query: 345 WLLIQKAEEEKLLQVTIKLPEDS----LNKLFSDCKEHYLSDGVSKSAQLWNDQRELILK 400
+ ++ E E L +++KL S + LF E + S A WN+ R+L
Sbjct: 407 DVFLKMVEAESLNLLSVKLHMSSQAQYIEHLFQIALE---TTNTSDIAIEWNNFRKLAFN 463
Query: 401 DALDNFLLPSMVKEARSLMSGRAKSWLLMEYGKALWNKVSVGPYQRKDNDITPDEEAAPR 460
A+D + + +E + ++ + + K+ P+ D P+
Sbjct: 464 QAMDK-IFQDISQEVKDNLTKNCQKLVAKTVRHKFMTKLDQAPFIPNVRD-----PKIPK 517
Query: 461 VLACCWGPGK---PETTFVMLDSSGEVVDVLFTGCLTLRSQNVRDQQSKKNDQER----L 513
+L+ G G+ V ++ G+ + R + D K + E+ L
Sbjct: 518 ILSLTCGQGRFGADAIIAVYVNRKGDFI----------RDYKIVDNPFDKTNPEKFEDTL 567
Query: 514 LKFMMDHQPHVVVLGAVNLSCTSLKDDIYEIIFKMVEEHPRDVGHEMDELSIVYGDESLP 573
+ QP+ + + N + E++ K R GH + I+Y ++ +
Sbjct: 568 DNIIQSCQPNAIGINGPNPKTQKFYKRLQEVLHKKQIVDSR--GHT---IPIIYVEDEVA 622
Query: 574 RLYENSRISSDQLPGQKGNVKRAVALGRYLQNPLAMVATLCGPGREILSWKLCPLENFLT 633
Y+NS ++ + P + VK +AL RY+ +PL A L E+ S + P +N L+
Sbjct: 623 IRYQNSERAAQEFPNKPPLVKYCIALARYMHSPLLEYANLTS--EEVRSLSIHPHQNLLS 680
Query: 634 PDEKYGMIEQVMVDVTNQVGLDINLAIHREWQFAPLQFISGLGPRKAASLQRSLVRAGA- 692
++ +E VD+ N V +++N A + + L++ISG G RKA +SL R
Sbjct: 681 SEQLSWALETAFVDIVNLVSVEVNKATDNNYYASALKYISGFGKRKAIDFLQSLQRLNEP 740
Query: 693 IFTRKDFVTAHGLGKKVFVNAVGFLRVRRSGQAASSSQF-IDLLDDTRIHPESYGLAQEL 751
+ R+ +T + L K +F+N+ GFL + + + D LD TRIHPE Y LA ++
Sbjct: 741 LLARQQLITHNILHKTIFMNSAGFLYISWNEKRQKYEDLEHDQLDSTRIHPEDYHLATKV 800
Query: 752 AKEV--YNRDIEGDLNDDEDALEMAIEHVRDRPDL---LKTYLLDRHIKEKKREN---KR 803
A + Y+ D + +++ + IE +R+ PD L++ L+ + +E ++ K
Sbjct: 801 AADALEYDPDTIAE-KEEQGTMSEFIELLREDPDRRAKLESLNLESYAEELEKNTGLRKL 859
Query: 804 ETLYLIRRELIHGFQDWRNQYKEPSQDEEFYMISGETEDTLAEGRVVQATVRRVQGQRAI 863
L I EL+ GF++ RN + DE F ++GE+E T +G ++ V R I
Sbjct: 860 NNLNTIVLELLDGFEELRNDFHPLQGDEIFQSLTGESEKTFFKGSIIPVRVERFWHNDII 919
Query: 864 CVLESGLAGMLMKEDYSDDWRDSELSDKLHEGDILTCKIKSIQKNRYQVFLVCRESEMRN 923
C S + ++ + ++ ++ G K+ I + + +++
Sbjct: 920 CTTNSEVECVVNAQRHAGAQLRRPANEIYEIGKTYPAKVIYIDYANITAEVSLLDHDVKQ 979
Query: 924 NRYQHCQNLDPYYHXXXXXXXXXXXXXXXXXXXXXXHFKERLIVHPCFQNVTADEAMKLL 983
+ DP R+I HP + +A L
Sbjct: 980 QYVPISYSKDPSIWDLKQELEDAEEERKLMMAEARAKRTHRVINHPYYFPFNGRQAEDYL 1039
Query: 984 SAKEPGESIIRPSSRGPSYLTLTLKVYDGVYAHKDIIEGGKDHKDIKSLVGIGKTLKIGE 1043
+KE GE +IR SSRG +L +T K+ ++ H DI E K++ + +GK L +
Sbjct: 1040 RSKERGEFVIRQSSRGDDHLVITWKLDKDLFQHIDIQELEKENP-----LALGKVLIVDN 1094
Query: 1044 DTFEDLDEVVDRYIDPLVSHLKAMLSYRKFRKGSKAEVDELLRIEKAEFPTRIVYGFGIS 1103
+ DLD+++ Y+ V L M S KF+ G+K +V + + P + VY F ++
Sbjct: 1095 QKYNDLDQIIVEYLQNKVRLLNEMTSSEKFKSGTKKDVVKFIEDYSRVNPNKSVYYFSLN 1154
Query: 1104 HEHPGTFILTYIRSTN 1119
H++PG F L + + N
Sbjct: 1155 HDNPGWFYLMFKINAN 1170
>pdb|3PSF|A Chain A, Crystal Structure Of The Spt6 Core Domain From
Saccharomyces Cerevisiae, Form Spt6(236-1259)
Length = 1030
Score = 157 bits (397), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 186/845 (22%), Positives = 349/845 (41%), Gaps = 81/845 (9%)
Query: 53 GHDLSISRDDIMRFLDLLHLQKLDIPFIAMYRKEECLSLLKDLEQNEVXXXXXXXFERTP 112
+DL+ ++ I + + + L++PFI YR+ S KD
Sbjct: 135 NYDLTEFKEAIGNAIKFITKENLEVPFIYAYRRNYISSREKD-----------------G 177
Query: 113 TLKWHKVLWAIHDLDKKWLLLQKRKSALQSYYKKRYEEESRRI-YDETRLALNQQLFDSI 171
L LW I LD ++ L +K +Q +Y + + ++ Y + + + +S+
Sbjct: 178 FLLTEDDLWDIVSLDIEFHSLVNKKDYVQRFYAELHIDDPIVTEYFKNQNTASIAELNSL 237
Query: 172 SKSLEAAETEREVDDVDLKFNLHFPPGEVGVDEGQYKRPKRSTKYSSCSKAGLWEVASKF 231
+ E + + ++ N G+ + Y++ K S Y + S G+ A
Sbjct: 238 QDIYDYLEFKYANEINEMFINHTGKTGKKHLKNSSYEKFKASPLYQAVSDIGI--SAEDV 295
Query: 232 GYXXXXXXXXXXXXKMGDELEDPKETPEEM------ASNFKCAMFNS-SQAVLQGARHMA 284
G ++ ++ P P E+ A++ +F S ++ + +
Sbjct: 296 G------ENISSQHQIHPPVDHPSSKPVEVIESILNANSGDLQVFTSNTKLAIDTVQKYY 349
Query: 285 AVEISCEPCVRKYVRSIFMDNAVVSTCPTPDGDSAIDSFHQFAGVKWLREKPLRKFEDAQ 344
++E+S +R+ VRS F + T G I + +K+ + F
Sbjct: 350 SLELSKNTKIREKVRSDFSKYYLADVVLTAKGKKEIQKGSLYEDIKYAINRTPMHFRRDP 409
Query: 345 WLLIQKAEEEKLLQVTIKLPEDS----LNKLFSDCKEHYLSDGVSKSAQLWNDQRELILK 400
+ ++ E E L +++KL S + LF E + S A WN+ R+L
Sbjct: 410 DVFLKMVEAESLNLLSVKLHMSSQAQYIEHLFQIALE---TTNTSDIAIEWNNFRKLAFN 466
Query: 401 DALDNFLLPSMVKEARSLMSGRAKSWLLMEYGKALWNKVSVGPYQRKDNDITPDEEAAPR 460
A+D + + +E + ++ + + K+ P+ D P+
Sbjct: 467 QAMDK-IFQDISQEVKDNLTKNCQKLVAKTVRHKFMTKLDQAPFIPNVRD-----PKIPK 520
Query: 461 VLACCWGPGK---PETTFVMLDSSGEVVDVLFTGCLTLRSQNVRDQQSKKNDQER----L 513
+L+ G G+ V ++ G+ + R + D K + E+ L
Sbjct: 521 ILSLTCGQGRFGADAIIAVYVNRKGDFI----------RDYKIVDNPFDKTNPEKFEDTL 570
Query: 514 LKFMMDHQPHVVVLGAVNLSCTSLKDDIYEIIFKMVEEHPRDVGHEMDELSIVYGDESLP 573
+ QP+ + + N + E++ K R GH + I+Y ++ +
Sbjct: 571 DNIIQSCQPNAIGINGPNPKTQKFYKRLQEVLHKKQIVDSR--GHT---IPIIYVEDEVA 625
Query: 574 RLYENSRISSDQLPGQKGNVKRAVALGRYLQNPLAMVATLCGPGREILSWKLCPLENFLT 633
Y+NS ++ + P + VK +AL RY+ +PL A L E+ S + P +N L+
Sbjct: 626 IRYQNSERAAQEFPNKPPLVKYCIALARYMHSPLLEYANLTS--EEVRSLSIHPHQNLLS 683
Query: 634 PDEKYGMIEQVMVDVTNQVGLDINLAIHREWQFAPLQFISGLGPRKAASLQRSLVRAGA- 692
++ +E VD+ N V +++N A + + L++ISG G RKA +SL R
Sbjct: 684 SEQLSWALETAFVDIVNLVSVEVNKATDNNYYASALKYISGFGKRKAIDFLQSLQRLNEP 743
Query: 693 IFTRKDFVTAHGLGKKVFVNAVGFLRVRRSGQAASSSQF-IDLLDDTRIHPESYGLAQEL 751
+ R+ +T + L K +F+N+ GFL + + + D LD TRIHPE Y LA ++
Sbjct: 744 LLARQQLITHNILHKTIFMNSAGFLYISWNEKRQKYEDLEHDQLDSTRIHPEDYHLATKV 803
Query: 752 AKEV--YNRDIEGDLNDDEDALEMAIEHVRDRPDL---LKTYLLDRHIKEKKREN---KR 803
A + Y+ D + +++ + IE +R+ PD L++ L+ + +E ++ K
Sbjct: 804 AADALEYDPDTIAE-KEEQGTMSEFIELLREDPDRRAKLESLNLESYAEELEKNTGLRKL 862
Query: 804 ETLYLIRRELIHGFQDWRNQYKEPSQDEEFYMISGETEDTLAEGRVVQATVRRVQGQRAI 863
L I EL+ GF++ RN + DE F ++GE+E T +G ++ V R I
Sbjct: 863 NNLNTIVLELLDGFEELRNDFHPLQGDEIFQSLTGESEKTFFKGSIIPVRVERFWHNDII 922
Query: 864 CVLES 868
C S
Sbjct: 923 CTTNS 927
>pdb|3PSK|A Chain A, Crystal Structure Of The Spt6 Tandem Sh2 Domain From
Saccharomyces Cerevisiae, Form Native Spt6 (1247-1451)
pdb|3PSK|B Chain B, Crystal Structure Of The Spt6 Tandem Sh2 Domain From
Saccharomyces Cerevisiae, Form Native Spt6 (1247-1451)
pdb|3PSK|C Chain C, Crystal Structure Of The Spt6 Tandem Sh2 Domain From
Saccharomyces Cerevisiae, Form Native Spt6 (1247-1451)
pdb|3PSK|D Chain D, Crystal Structure Of The Spt6 Tandem Sh2 Domain From
Saccharomyces Cerevisiae, Form Native Spt6 (1247-1451)
Length = 211
Score = 85.1 bits (209), Expect = 3e-16, Method: Composition-based stats.
Identities = 50/156 (32%), Positives = 82/156 (52%), Gaps = 5/156 (3%)
Query: 964 RLIVHPCFQNVTADEAMKLLSAKEPGESIIRPSSRGPSYLTLTLKVYDGVYAHKDIIEGG 1023
R+I HP + +A L +KE GE +IR SSRG +L +T K+ ++ H DI E
Sbjct: 12 RVINHPYYFPFNGRQAEDYLRSKERGEFVIRQSSRGDDHLVITWKLDKDLFQHIDIQELE 71
Query: 1024 KDHKDIKSLVGIGKTLKIGEDTFEDLDEVVDRYIDPLVSHLKAMLSYRKFRKGSKAEVDE 1083
K++ + +GK L + + DLD+++ Y+ V L M S KF+ G+K +V +
Sbjct: 72 KENP-----LALGKVLIVDNQKYNDLDQIIVEYLQNKVRLLNEMTSSEKFKSGTKKDVVK 126
Query: 1084 LLRIEKAEFPTRIVYGFGISHEHPGTFILTYIRSTN 1119
+ P + VY F ++H++PG F L + + N
Sbjct: 127 FIEDYSRVNPNKSVYYFSLNHDNPGWFYLMFKINAN 162
>pdb|2L3T|A Chain A, Solution Structure Of Tandem Sh2 Domain From Spt6
Length = 199
Score = 85.1 bits (209), Expect = 3e-16, Method: Composition-based stats.
Identities = 50/156 (32%), Positives = 82/156 (52%), Gaps = 5/156 (3%)
Query: 964 RLIVHPCFQNVTADEAMKLLSAKEPGESIIRPSSRGPSYLTLTLKVYDGVYAHKDIIEGG 1023
R+I HP + +A L +KE GE +IR SSRG +L +T K+ ++ H DI E
Sbjct: 3 RVINHPYYFPFNGRQAEDYLRSKERGEFVIRQSSRGDDHLVITWKLDKDLFQHIDIQELE 62
Query: 1024 KDHKDIKSLVGIGKTLKIGEDTFEDLDEVVDRYIDPLVSHLKAMLSYRKFRKGSKAEVDE 1083
K++ + +GK L + + DLD+++ Y+ V L M S KF+ G+K +V +
Sbjct: 63 KENP-----LALGKVLIVDNQKYNDLDQIIVEYLQNKVRLLNEMTSSEKFKSGTKKDVVK 117
Query: 1084 LLRIEKAEFPTRIVYGFGISHEHPGTFILTYIRSTN 1119
+ P + VY F ++H++PG F L + + N
Sbjct: 118 FIEDYSRVNPNKSVYYFSLNHDNPGWFYLMFKINAN 153
>pdb|3PSJ|A Chain A, Crystal Structure Of The Spt6 Tandem Sh2 Domain From
Saccharomyces Cerevisiae, Form Se-Spt6 (1247-1451)
Length = 210
Score = 82.4 bits (202), Expect = 1e-15, Method: Composition-based stats.
Identities = 49/156 (31%), Positives = 81/156 (51%), Gaps = 5/156 (3%)
Query: 964 RLIVHPCFQNVTADEAMKLLSAKEPGESIIRPSSRGPSYLTLTLKVYDGVYAHKDIIEGG 1023
R+I HP + +A L +KE GE +IR SSRG +L +T K+ ++ H DI E
Sbjct: 11 RVINHPYYFPFNGRQAEDYLRSKERGEFVIRQSSRGDDHLVITWKLDKDLFQHIDIQELE 70
Query: 1024 KDHKDIKSLVGIGKTLKIGEDTFEDLDEVVDRYIDPLVSHLKAMLSYRKFRKGSKAEVDE 1083
K++ + +GK L + + DLD+++ Y+ V L S KF+ G+K +V +
Sbjct: 71 KENP-----LALGKVLIVDNQKYNDLDQIIVEYLQNKVRLLNEXTSSEKFKSGTKKDVVK 125
Query: 1084 LLRIEKAEFPTRIVYGFGISHEHPGTFILTYIRSTN 1119
+ P + VY F ++H++PG F L + + N
Sbjct: 126 FIEDYSRVNPNKSVYYFSLNHDNPGWFYLXFKINAN 161
>pdb|3PJP|A Chain A, A Tandem Sh2 Domain In Transcription Elongation Factor Spt6
Binds The Phosphorylated Rna Polymerase Ii C-Terminal
Repeat Domain(Ctd)
pdb|3PJP|B Chain B, A Tandem Sh2 Domain In Transcription Elongation Factor Spt6
Binds The Phosphorylated Rna Polymerase Ii C-Terminal
Repeat Domain(Ctd)
Length = 199
Score = 81.3 bits (199), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 47/151 (31%), Positives = 80/151 (52%), Gaps = 5/151 (3%)
Query: 964 RLIVHPCFQNVTADEAMKLLSAKEPGESIIRPSSRGPSYLTLTLKVYDGVYAHKDIIEGG 1023
R+I HP + +A L +KE G+ +IR SSRG +L +T K+ ++ H DI E
Sbjct: 6 RVINHPYYFPFNGKQAEDYLRSKERGDFVIRQSSRGDDHLAITWKLDKDLFQHVDIQELE 65
Query: 1024 KDHKDIKSLVGIGKTLKIGEDTFEDLDEVVDRYIDPLVSHLKAMLSYRKFRKGSKAEVDE 1083
K++ + +GK L + + DLD+++ Y+ + L + S KF+ G+K EV +
Sbjct: 66 KENP-----LALGKVLVVEGQRYHDLDQIIVEYLQNKIRLLNELTSNEKFKAGTKKEVVK 120
Query: 1084 LLRIEKAEFPTRIVYGFGISHEHPGTFILTY 1114
+ P + VY F +++E+PG F L +
Sbjct: 121 FIEDYSKVNPKKSVYYFSLNYENPGWFYLIF 151
>pdb|2OCE|A Chain A, Crystal Structure Of Tex Family Protein Pa5201 From
Pseudomonas Aeruginosa
Length = 780
Score = 73.9 bits (180), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 122/563 (21%), Positives = 229/563 (40%), Gaps = 79/563 (14%)
Query: 207 YKRPKRSTKYSSCSKAGLWEVASKFGYXXXXXXXXXXXXKMGDELEDPKETPEEMASNFK 266
YK+ KR TK +AGL +A +DP PE A+ F
Sbjct: 112 YKQ-KRRTKGQIALEAGLGALADAL-------------------FDDPTLVPESEAARFV 151
Query: 267 CA--MFNSSQAVLQGARHMAAVEISCEPCVRKYVRSIFMDNAVVSTCPTPDGDSAIDSFH 324
A F +AVL+GA+++ + + + +R + A ++ P + F
Sbjct: 152 DAEKGFADVKAVLEGAKYILMERFAEDATLLDKLRVFMKNEATLTARVVPGKEQEGAKFS 211
Query: 325 QFAGVKWLREKPLRKFEDAQWLLIQKAEEEKLLQVTIKLPEDSLNKLFSDCKEHYLSDGV 384
+ + ++PL+ + L I + E +L ++K+ E++ L H +
Sbjct: 212 DY----FEHDEPLKSAPSHRALAIFRGRNEGVLSASLKVGEEAPGTL------HPCEVMI 261
Query: 385 SKSAQLWNDQRELILKDALDNFLLPSMVKEARSLMSGRAKSWLLMEYGKALWNKVSVGPY 444
++ L N R A D +L + + + ++ L E ++ ++ +
Sbjct: 262 AERFGLSNQGR------AADKWLAEVVRWTWKVKLYTHLETDLFGELRDGAEDE-AISVF 314
Query: 445 QRKDNDITPDEEAAPRVLACCWGPG-KPETTFVMLDSSGEVVDVLFTGCLTLRSQNVRDQ 503
R +D+ A PR PG + ++D++G+++D + V
Sbjct: 315 ARNLHDLLLAAPAGPRA-TLGLDPGLRTGVKVAVVDATGKLLD----------TATVYPH 363
Query: 504 QSKKNDQERLLKFMMDHQPHVVVLGAVNLSCTSLKDDIYEIIFKMVEEHPRDVGHEMDEL 563
K + L H V L A+ S + D ++ ++++++P G ++ ++
Sbjct: 364 APKNQWDQTLAVLAALCAKHQVELIAIGNGTASRETD--KLAGELIKKYP---GMKLTKI 418
Query: 564 SIVYGDESLPRLYENSRISSDQLPGQKGNVKRAVALGRYLQNPLAMVATLCGPGREILSW 623
+ E+ +Y S +++ + P +++ AV++ R LQ+PLA + + E S
Sbjct: 419 MV---SEAGASVYSASELAAKEFPELDVSLRGAVSIARRLQDPLAELVKI-----EPKSI 470
Query: 624 KLCPLENFLTPDEKYGMIEQVMVDVTNQVGLDINLAIHREWQFAPLQFISGLGPRKAASL 683
+ ++ ++ + ++ V+ D N VG+D+N A A L ISGL A ++
Sbjct: 471 GVGQYQHDVSQLKLARSLDAVVEDCVNAVGVDVNTA-----SAALLARISGLNSTLAQNI 525
Query: 684 QRSLVRAGAIFTRKDFVTAHGLGKKVFVNAVGFLRVRRSGQAASSSQFIDLLDDTRIHPE 743
GA TR + LG+K F A GFLRV LD + +HPE
Sbjct: 526 VAHRDANGAFRTRDELKKVSRLGEKTFEQAAGFLRVMNGDNP---------LDASAVHPE 576
Query: 744 SYGLAQELAKEVYNRDIEGDLND 766
+Y L Q +A + RDI + D
Sbjct: 577 TYPLVQRIAADT-ERDIRSLIGD 598
>pdb|3BZC|A Chain A, Crystal Structure Of The Tex Protein From Pseudomonas
Aeruginosa, Crystal Form I
pdb|3BZK|A Chain A, Crystal Structure Of The Tex Protein From Pseudomonas
Aeruginosa, Crystal Form 2
Length = 785
Score = 73.9 bits (180), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 122/563 (21%), Positives = 229/563 (40%), Gaps = 79/563 (14%)
Query: 207 YKRPKRSTKYSSCSKAGLWEVASKFGYXXXXXXXXXXXXKMGDELEDPKETPEEMASNFK 266
YK+ KR TK +AGL +A +DP PE A+ F
Sbjct: 111 YKQ-KRRTKGQIALEAGLGALADAL-------------------FDDPTLVPESEAARFV 150
Query: 267 CA--MFNSSQAVLQGARHMAAVEISCEPCVRKYVRSIFMDNAVVSTCPTPDGDSAIDSFH 324
A F +AVL+GA+++ + + + +R + A ++ P + F
Sbjct: 151 DAEKGFADVKAVLEGAKYILMERFAEDATLLDKLRVFMKNEATLTARVVPGKEQEGAKFS 210
Query: 325 QFAGVKWLREKPLRKFEDAQWLLIQKAEEEKLLQVTIKLPEDSLNKLFSDCKEHYLSDGV 384
+ + ++PL+ + L I + E +L ++K+ E++ L H +
Sbjct: 211 DY----FEHDEPLKSAPSHRALAIFRGRNEGVLSASLKVGEEAPGTL------HPCEVMI 260
Query: 385 SKSAQLWNDQRELILKDALDNFLLPSMVKEARSLMSGRAKSWLLMEYGKALWNKVSVGPY 444
++ L N R A D +L + + + ++ L E ++ ++ +
Sbjct: 261 AERFGLSNQGR------AADKWLAEVVRWTWKVKLYTHLETDLFGELRDGAEDE-AISVF 313
Query: 445 QRKDNDITPDEEAAPRVLACCWGPG-KPETTFVMLDSSGEVVDVLFTGCLTLRSQNVRDQ 503
R +D+ A PR PG + ++D++G+++D + V
Sbjct: 314 ARNLHDLLLAAPAGPRA-TLGLDPGLRTGVKVAVVDATGKLLD----------TATVYPH 362
Query: 504 QSKKNDQERLLKFMMDHQPHVVVLGAVNLSCTSLKDDIYEIIFKMVEEHPRDVGHEMDEL 563
K + L H V L A+ S + D ++ ++++++P G ++ ++
Sbjct: 363 APKNQWDQTLAVLAALCAKHQVELIAIGNGTASRETD--KLAGELIKKYP---GMKLTKI 417
Query: 564 SIVYGDESLPRLYENSRISSDQLPGQKGNVKRAVALGRYLQNPLAMVATLCGPGREILSW 623
+ E+ +Y S +++ + P +++ AV++ R LQ+PLA + + E S
Sbjct: 418 MV---SEAGASVYSASELAAKEFPELDVSLRGAVSIARRLQDPLAELVKI-----EPKSI 469
Query: 624 KLCPLENFLTPDEKYGMIEQVMVDVTNQVGLDINLAIHREWQFAPLQFISGLGPRKAASL 683
+ ++ ++ + ++ V+ D N VG+D+N A A L ISGL A ++
Sbjct: 470 GVGQYQHDVSQLKLARSLDAVVEDCVNAVGVDVNTA-----SAALLARISGLNSTLAQNI 524
Query: 684 QRSLVRAGAIFTRKDFVTAHGLGKKVFVNAVGFLRVRRSGQAASSSQFIDLLDDTRIHPE 743
GA TR + LG+K F A GFLRV LD + +HPE
Sbjct: 525 VAHRDANGAFRTRDELKKVSRLGEKTFEQAAGFLRVMNGDNP---------LDASAVHPE 575
Query: 744 SYGLAQELAKEVYNRDIEGDLND 766
+Y L Q +A + RDI + D
Sbjct: 576 TYPLVQRIAADT-ERDIRSLIGD 597
>pdb|2XP1|A Chain A, Structure Of The Tandem Sh2 Domains From Antonospora
Locustae Transcription Elongation Factor Spt6
Length = 178
Score = 63.9 bits (154), Expect = 6e-10, Method: Composition-based stats.
Identities = 52/189 (27%), Positives = 87/189 (46%), Gaps = 23/189 (12%)
Query: 964 RLIVHPCFQNVTADEAMKLLSAKEPGESIIRPSSRGPSYLTLTLKVYDGVYAHKDIIEGG 1023
R HP F+N E+ L + + +IR SR Y L +K V+ H I E
Sbjct: 10 RFYKHPLFKNFNVTESENYLRSST-DDFLIRKGSRH-GYCVLVIKFASDVFVHMKIEEHS 67
Query: 1024 KDHKDIKSLVGIGKTLKIGEDTFEDLDEVVDRYIDPLVSHLKAMLSYRKFRKGSKAEVDE 1083
+ + FED+DEV+ Y+ P++ +LK++ ++ K+ S + ++
Sbjct: 68 EHYT-------------CSNKHFEDIDEVISVYVRPILRNLKSIKAHAKYFN-SPEDAEK 113
Query: 1084 LLRIEKAEFP-TRIVYGFGISHEHPGTFILTYIRSTNPHHEYIGLYPKGFKFRKRMFEDI 1142
LL + F +++VY F S ++PG Y + + EYIG+ + F+DI
Sbjct: 114 LL----SSFDGSKVVYAFYFSRKYPGKLTFAY-NNGSILEEYIGV-SDMLTYNNSTFKDI 167
Query: 1143 DRLVAYFQR 1151
D VAY +R
Sbjct: 168 DSFVAYRKR 176
>pdb|3GXW|A Chain A, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form A
pdb|3GXW|B Chain B, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form A
pdb|3GXW|C Chain C, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form A
pdb|3GXW|D Chain D, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form A
pdb|3GXX|A Chain A, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form B
pdb|3GXX|B Chain B, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form B
pdb|3GXX|C Chain C, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form B
pdb|3GXX|D Chain D, Structure Of The Sh2 Domain Of The Candida Glabrata
Transcription Elongation Factor Spt6, Crystal Form B
Length = 103
Score = 52.4 bits (124), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 50/94 (53%), Gaps = 5/94 (5%)
Query: 964 RLIVHPCFQNVTADEAMKLLSAKEPGESIIRPSSRGPSYLTLTLKVYDGVYAHKDIIEGG 1023
R+I HP + +A L +KE G+ +IR SSRG +L +T K+ ++ H DI E
Sbjct: 6 RVINHPYYFPFNGKQAEDYLRSKERGDFVIRQSSRGDDHLAITWKLDKDLFQHVDIQEXE 65
Query: 1024 KDHKDIKSLVGIGKTLKIGEDTFEDLDEVVDRYI 1057
K++ + GK L + + DLD+++ Y+
Sbjct: 66 KENP-----LAXGKVLVVEGQRYHDLDQIIVEYL 94
>pdb|2SHP|A Chain A, Tyrosine Phosphatase Shp-2
pdb|2SHP|B Chain B, Tyrosine Phosphatase Shp-2
Length = 525
Score = 32.3 bits (72), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 48/169 (28%), Positives = 67/169 (39%), Gaps = 35/169 (20%)
Query: 961 FKERLIVHPCFQNVTADEAMKLLSAKE-PGESIIRPSSRGPSYLTLTLKVYDGVYAHKDI 1019
K R HP N+T EA LL + G + RPS P LTL+++ +G H I
Sbjct: 1 MKSRRWFHP---NITGVEAENLLLTRGVDGSFLARPSKSNPGDLTLSVR-RNGAVTHIKI 56
Query: 1020 IEGGKDHKDIKSLVGIGKTLKIGEDTFEDLDEVVDRYIDPL---------VSHLKAML-- 1068
G D+ D+ G + F L E+V Y++ V LK L
Sbjct: 57 QNTG-DYYDL-----------YGGEKFATLAELVQYYMEHHGQLKEKNGDVIELKYPLNC 104
Query: 1069 ----SYRKFRKGSKAEVDELLRIEKAEFPTRIVYGFGISHEHPGTFILT 1113
S R F + E L EK + + +V S HPG F+L+
Sbjct: 105 ADPTSERWFHGHLSGKEAEKLLTEKGKHGSFLVRE---SQSHPGDFVLS 150
>pdb|2HMH|A Chain A, Crystal Structure Of Socs3 In Complex With Gp130(Ptyr757)
Phosphopeptide
Length = 152
Score = 30.8 bits (68), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 26/50 (52%)
Query: 974 VTADEAMKLLSAKEPGESIIRPSSRGPSYLTLTLKVYDGVYAHKDIIEGG 1023
VT EA LLSA+ G +IR SS + TL++K G + EGG
Sbjct: 41 VTGGEANLLLSAEPAGTFLIRDSSDQRHFFTLSVKTQSGTKNLRIQXEGG 90
>pdb|2BBU|A Chain A, Solution Structure Of Mouse Socs3 In Complex With A
Phosphopeptide From The Gp130 Receptor
Length = 164
Score = 30.4 bits (67), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 26/50 (52%)
Query: 974 VTADEAMKLLSAKEPGESIIRPSSRGPSYLTLTLKVYDGVYAHKDIIEGG 1023
VT EA LLSA+ G +IR SS + TL++K G + EGG
Sbjct: 30 VTGGEANLLLSAEPAGTFLIRDSSDQRHFFTLSVKTQSGTKNLRIQCEGG 79
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 0.135 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 37,015,587
Number of Sequences: 62578
Number of extensions: 1521530
Number of successful extensions: 3833
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 3793
Number of HSP's gapped (non-prelim): 17
length of query: 1344
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1233
effective length of database: 8,027,179
effective search space: 9897511707
effective search space used: 9897511707
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: 57 (26.6 bits)